Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 98 of 131
Found at i:17559476 original size:122 final size:122
Alignment explanation
Indices: 17559259--17559486 Score: 309
Period size: 122 Copynumber: 1.9 Consensus size: 122
17559249 TTTTGTTAAA
* * *
17559259 GGATTATTCAAGGCGTTTTTTGCCAAAAACTCCTTGAATAATCCCCTTTAATTTTTTGTAAAGGA
1 GGATTATTCAAGGCGTTTTTTACCAAAAACTCCTTGAATAATCCCATTTAATTTTATGTAAAGGA
* * *
17559324 TTATTCAATGCGTTTCTAGCCAAAAACACCTTCAA-TAATCCAAAAAAAAAAGGCAGT
66 TTATTCAAAGCATTTATAGCCAAAAACACC-TCAAGTAATCCAAAAAAAAAAGGCAGT
** *
17559381 GGATTATTCAAGGCGTTTTTTACCGTAAA-TGCCTTGAATAATCCCATTTAATTTTAATG-AAGG
1 GGATTATTCAAGGCGTTTTTTACCAAAAACT-CCTTGAATAATCCCATTTAATTTT-ATGTAAAG
* *
17559444 GATTATTTAAAGCATTTATGGCCAAAAACACCTCAAGTAATCC
64 GATTATTCAAAGCATTTATAGCCAAAAACACCTCAAGTAATCC
17559487 CATCCAATAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
121 5 0.05
122 85 0.92
123 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (122 bp):
GGATTATTCAAGGCGTTTTTTACCAAAAACTCCTTGAATAATCCCATTTAATTTTATGTAAAGGA
TTATTCAAAGCATTTATAGCCAAAAACACCTCAAGTAATCCAAAAAAAAAAGGCAGT
Found at i:17560743 original size:24 final size:24
Alignment explanation
Indices: 17560703--17560751 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17560693 AAACTATATC
* *
17560703 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
17560726 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
17560751 A
1 A
17560752 AAAAGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:17561377 original size:3 final size:3
Alignment explanation
Indices: 17561369--17561409 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17561359 CTTAAGAGAC
17561369 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17561410 TGTATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17563162 original size:16 final size:16
Alignment explanation
Indices: 17563141--17563171 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17563131 TATCAATTAA
*
17563141 TAAAAATAATTAAATC
1 TAAAAATAAATAAATC
17563157 TAAAAATAAATAAAT
1 TAAAAATAAATAAAT
17563172 AAATAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATAAATAAATC
Found at i:17563581 original size:33 final size:31
Alignment explanation
Indices: 17563535--17563599 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
17563525 TTTTTTAAAT
*
17563535 AAAAAAAGCAATGAAAGGGTTTTTCTAAAAAA
1 AAAAAAAGCAATGAAAGGATTTTT-TAAAAAA
* * *
17563567 AAAAAAAGATAATGAGAGTATTTTTTAAAAAA
1 AAAAAAAG-CAATGAAAGGATTTTTTAAAAAA
17563599 A
1 A
17563600 TATGAGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.58, C:0.03, G:0.14, T:0.25
Consensus pattern (31 bp):
AAAAAAAGCAATGAAAGGATTTTTTAAAAAA
Found at i:17563690 original size:36 final size:36
Alignment explanation
Indices: 17563650--17563916 Score: 134
Period size: 36 Copynumber: 7.4 Consensus size: 36
17563640 TGAGCATTTC
* *
17563650 CCTAAAAAATAGAAAAATAAGTAATATGAGTGTTTT
1 CCTAAAAAATAGAAAAACAAGTAATAAGAGTGTTTT
* * * *
17563686 CCTAAAAAATAGGAGAACAAGTAATAAGTGTTTTTT
1 CCTAAAAAATAGAAAAACAAGTAATAAGAGTGTTTT
* * *
17563722 TCTAAAAAAATAGAAACACAAGTACTGAA-AGTGTTTT
1 CCT-AAAAAATAGAAAAACAAGTAAT-AAGAGTGTTTT
** ** * * * *
17563759 TTTAAAAAATA-AGTGAACAATTAATATGA-AGATTT
1 CCTAAAAAATAGA-AAAACAAGTAATAAGAGTGTTTT
* * * * * *
17563794 CTCTTAAAAATA-AAAGAATAAGCAATGAGAATGTTTA
1 C-CTAAAAAATAGAAA-AACAAGTAATAAGAGTGTTTT
* * *
17563831 CTTAAAAAATAGAAGAACAAGTAA-AACGAATGCTTTT
1 CCTAAAAAATAGAAAAACAAGTAATAA-GAGTG-TTTT
* * * *
17563868 -CTAAAAAATAGTAGAACAAGTAAT-AGAAATATTTT
1 CCTAAAAAATAGAAAAACAAGTAATAAG-AGTGTTTT
*
17563903 TCTAAAAAATAGAA
1 CCTAAAAAATAGAA
17563917 GAATAAATAA
Statistics
Matches: 172, Mismatches: 46, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
35 12 0.07
36 123 0.72
37 35 0.20
38 2 0.01
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.28
Consensus pattern (36 bp):
CCTAAAAAATAGAAAAACAAGTAATAAGAGTGTTTT
Found at i:17563911 original size:145 final size:145
Alignment explanation
Indices: 17563645--17563911 Score: 303
Period size: 145 Copynumber: 1.8 Consensus size: 145
17563635 ATAGGTGAGC
* * * *
17563645 ATTTCCCTAAAAAATAGAAAAATAAGTAATATGAGTGTTTTCCTAAAAAATAGGAGAACAAGTAA
1 ATTTCCCTAAAAAATAGAAAAATAAGCAATATGAATGTTTACCTAAAAAATAGAAGAACAAGTAA
** ** * * *
17563710 TAAGTGTTTTTTTCTAAAAAAATAGAAACACAAGTACTGAAAGTGTTTTTTTAAAAAATAAGTGA
66 TAAGAATGCTTTTCTAAAAAAATAGAAACACAAGTAATGAAAGTATTTTTTAAAAAAATAAGTGA
17563775 ACAATTAATATGAAG
131 ACAATTAATATGAAG
* * *
17563790 ATTTCTCTTAAAAATA-AAAGAATAAGCAATGA-GAATGTTTACTTAAAAAATAGAAGAACAAGT
1 ATTTCCCTAAAAAATAGAAA-AATAAGCAAT-ATGAATGTTTACCTAAAAAATAGAAGAACAAGT
*
17563853 AA-AACGAATGCTTTTCT-AAAAAATAGTAGA-ACAAGTAATAGAAA-TATTTTTCTAAAAAA
64 AATAA-GAATGCTTTTCTAAAAAAATAG-AAACACAAGTAAT-GAAAGTATTTTT-TAAAAAA
17563912 TAGAAGAATA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
144 28 0.28
145 72 0.71
146 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (145 bp):
ATTTCCCTAAAAAATAGAAAAATAAGCAATATGAATGTTTACCTAAAAAATAGAAGAACAAGTAA
TAAGAATGCTTTTCTAAAAAAATAGAAACACAAGTAATGAAAGTATTTTTTAAAAAAATAAGTGA
ACAATTAATATGAAG
Found at i:17563945 original size:36 final size:36
Alignment explanation
Indices: 17563833--17563947 Score: 128
Period size: 36 Copynumber: 3.2 Consensus size: 36
17563823 AATGTTTACT
* *
17563833 TAAAAAATAGAAGAACAAGTAA-AACGAATGCTTTTC
1 TAAAAAATAGAAGAACAAGTAATGAC-AATACTTTTC
* *
17563869 TAAAAAATAGTAGAACAAGTAATAGA-AATATTTTTC
1 TAAAAAATAGAAGAACAAGTAAT-GACAATACTTTTC
* *
17563905 TAAAAAATAGAAGAATAAATAATGACAATACTTCTT-
1 TAAAAAATAGAAGAACAAGTAATGACAATACTT-TTC
17563941 TAAAAAA
1 TAAAAAA
17563948 AAATGAAAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
35 2 0.03
36 62 0.93
37 2 0.03
38 1 0.01
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (36 bp):
TAAAAAATAGAAGAACAAGTAATGACAATACTTTTC
Found at i:17565021 original size:21 final size:21
Alignment explanation
Indices: 17564995--17565036 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17564985 TAGAGTAAAC
17564995 TCATGAAGAGTACTTATTAAG
1 TCATGAAGAGTACTTATTAAG
17565016 TCATGAAGAGTACTTATTAAG
1 TCATGAAGAGTACTTATTAAG
17565037 ACATCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TCATGAAGAGTACTTATTAAG
Found at i:17568926 original size:22 final size:22
Alignment explanation
Indices: 17568878--17568929 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
17568868 TCGAAATGCC
17568878 TTATTTTTACAAGTCTAAAATG
1 TTATTTTTACAAGTCTAAAATG
* * *
17568900 ATATTTTTAACATGTTTAAAAT-
1 TTATTTTT-ACAAGTCTAAAATG
17568922 TTATTTTT
1 TTATTTTT
17568930 GACTAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (22 bp):
TTATTTTTACAAGTCTAAAATG
Found at i:17579656 original size:22 final size:22
Alignment explanation
Indices: 17579626--17579668 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17579616 ATGTTATGAA
17579626 ATATATATTTA-TTTTGTTAAAC
1 ATATATA-TTAGTTTTGTTAAAC
*
17579648 ATATTTATTAGTTTTGTTAAA
1 ATATATATTAGTTTTGTTAAA
17579669 ATTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
ATATATATTAGTTTTGTTAAAC
Found at i:17581428 original size:18 final size:17
Alignment explanation
Indices: 17581366--17581469 Score: 54
Period size: 19 Copynumber: 5.8 Consensus size: 17
17581356 ATCATACTAA
17581366 AATATTCATGCAAATATATT
1 AATA-TCATG-AAATATA-T
17581386 AATTATCAT-ACAATA-AT
1 AA-TATCATGA-AATATAT
*
17581403 AACAATCATGTAAATATAT
1 AA-TATCATG-AAATATAT
*
17581422 AATATCATGCAATAATAT
1 AATATCATGAAAT-ATAT
* *
17581440 AAAGATGATGCAAATATAT
1 -AATATCATG-AAATATAT
17581459 -A-ATCATGAAAT
1 AATATCATGAAAT
17581470 CAAATATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
15 4 0.06
16 5 0.07
17 12 0.18
18 16 0.24
19 20 0.29
20 9 0.13
21 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (17 bp):
AATATCATGAAATATAT
Found at i:17581435 original size:35 final size:37
Alignment explanation
Indices: 17581371--17581461 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
17581361 ACTAAAATAT
*
17581371 TCATGCAAATATATTAATTATCATACAATAATA-ACA-A
1 TCATGCAAATATA-TAA-TATCATACAATAATATAAAGA
* *
17581408 TCATGTAAATATATAATATCATGCAATAATATAAAGA
1 TCATGCAAATATATAATATCATACAATAATATAAAGA
*
17581445 TGATGCAAATATATAAT
1 TCATGCAAATATATAAT
17581462 CATGAAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 14 0.30
36 5 0.11
37 28 0.60
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (37 bp):
TCATGCAAATATATAATATCATACAATAATATAAAGA
Found at i:17581458 original size:19 final size:19
Alignment explanation
Indices: 17581371--17581460 Score: 64
Period size: 19 Copynumber: 4.8 Consensus size: 19
17581361 ACTAAAATAT
**
17581371 TCATGCAAATATATTAATTA
1 TCATGCAAATATA-TAAAGA
*
17581391 TCATAC-AATA-ATAACA-A
1 TCATGCAAATATATAA-AGA
* *
17581408 TCATGTAAATATAT-AATA
1 TCATGCAAATATATAAAGA
17581426 TCATGC-AATAATATAAAGA
1 TCATGCAAAT-ATATAAAGA
*
17581445 TGATGCAAATATATAA
1 TCATGCAAATATATAA
17581461 TCATGAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
17 12 0.21
18 16 0.29
19 20 0.36
20 8 0.14
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (19 bp):
TCATGCAAATATATAAAGA
Found at i:17581732 original size:20 final size:22
Alignment explanation
Indices: 17581709--17581758 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17581699 GCAAATAGAT
* *
17581709 ATGCAATTA-AATATAT-AATC
1 ATGCAATAATAATACATAAATC
17581729 ATGCAAATAATAATACATAAATC
1 ATGC-AATAATAATACATAAATC
17581752 ATGCAAT
1 ATGCAAT
17581759 CATGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.16
21 4 0.16
22 9 0.36
23 8 0.32
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (22 bp):
ATGCAATAATAATACATAAATC
Found at i:17581768 original size:31 final size:31
Alignment explanation
Indices: 17581725--17581788 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
17581715 TTAAATATAT
17581725 AATCATGCAAATAATAATACATAAA-TCATGC
1 AATCATGCAAATAATAATACATAAACT-ATGC
* *
17581756 AATCATGTAAATAATAATATATAAACTATGC
1 AATCATGCAAATAATAATACATAAACTATGC
17581787 AA
1 AA
17581789 AATATGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (31 bp):
AATCATGCAAATAATAATACATAAACTATGC
Found at i:17581878 original size:28 final size:24
Alignment explanation
Indices: 17581851--17581979 Score: 94
Period size: 24 Copynumber: 5.5 Consensus size: 24
17581841 ATCATGTAAA
*
17581851 TAAATGTATTAATAATCAAGCAAT
1 TAAATATATTAATAATCAAGCAAT
*
17581875 TAAATATATTAATAATCATGCAAT
1 TAAATATATTAATAATCAAGCAAT
* * * *
17581899 CAAAT-TAAGT-GTAATCATA-CAAA
1 TAAATAT-ATTAATAATCA-AGCAAT
*
17581922 TAAATATATTAATAATCATGC---
1 TAAATATATTAATAATCAAGCAAT
*
17581943 -AAATATATTAATAAATCACA-CAAA
1 TAAATATATTAAT-AATCA-AGCAAT
17581967 TAAATATATTAAT
1 TAAATATATTAAT
17581980 CATGTAAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
20 12 0.15
21 6 0.07
23 16 0.20
24 36 0.44
25 12 0.15
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (24 bp):
TAAATATATTAATAATCAAGCAAT
Found at i:17581926 original size:47 final size:45
Alignment explanation
Indices: 17581858--17581979 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 45
17581848 AAATAAATGT
*
17581858 ATTAAT-AATCA-AGCAATTAAATATATTAATAATCATGC-AATCAA
1 ATTAATAAATCACA-CAAATAAATATATTAATAATCATGCAAAT-AA
* * *
17581902 ATTAAGTGTAATCATACAAATAAATATATTAATAATCATGCAAATAT
1 ATTAA-T-AAATCACACAAATAAATATATTAATAATCATGCAAATAA
17581949 ATTAATAAATCACACAAATAAATATATTAAT
1 ATTAATAAATCACACAAATAAATATATTAAT
17581980 CATGTAAACA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
44 5 0.07
45 24 0.35
46 1 0.01
47 35 0.51
48 4 0.06
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (45 bp):
ATTAATAAATCACACAAATAAATATATTAATAATCATGCAAATAA
Found at i:17581966 original size:21 final size:20
Alignment explanation
Indices: 17581923--17581968 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
17581913 TCATACAAAT
**
17581923 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
17581943 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
17581964 AAATA
1 AAATA
17581969 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:17581980 original size:21 final size:21
Alignment explanation
Indices: 17581910--17581981 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
17581900 AAATTAAGTG
*
17581910 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
17581931 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
17581955 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
17581976 TAATCA
1 TAATCA
17581982 TGTAAACAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 20 0.51
22 2 0.05
23 3 0.08
24 14 0.36
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:17582675 original size:12 final size:12
Alignment explanation
Indices: 17582658--17582687 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17582648 GACTAAAAAA
17582658 CAAAAATTAAAC
1 CAAAAATTAAAC
17582670 CAAAAATTAAAC
1 CAAAAATTAAAC
*
17582682 TAAAAA
1 CAAAAA
17582688 ATTAGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:17582701 original size:12 final size:13
Alignment explanation
Indices: 17582659--17582700 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
17582649 ACTAAAAAAC
*
17582659 AAAAATTAAAC-C
1 AAAAATTAAACTA
17582671 AAAAATTAAACTA
1 AAAAATTAAACTA
17582684 AAAAATTAGAA-TA
1 AAAAATTA-AACTA
17582697 AAAA
1 AAAA
17582701 TAAAATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 14 0.52
14 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAAATTAAACTA
Found at i:17583121 original size:43 final size:42
Alignment explanation
Indices: 17582987--17583351 Score: 375
Period size: 43 Copynumber: 8.7 Consensus size: 42
17582977 CCTGCAATTA
* * *
17582987 AGGCTTTGAAACTTTT-TAAAATAAAATGCTCCCCATAATTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAACTG
** * ** *
17583028 AAACTTTGAAAC-TTTGGAAAATAAAATGCTCTCTTATAACTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTC-CCCACAACTG
*
17583070 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCTCACAACTA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCC-CACAACTG
* *
17583113 AGGTTTTGAAACTTTTGAAAAATAAAATACTCCCCTACAACTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC-ACAACTG
* * *
17583156 AGGCTTTGAAAC-TTTGAAAATATAAACTGCTCCCCACAAATA
1 AGGCTTTGAAACTTTTGAAAA-ATAAAATGCTCCCCACAACTG
* * * *
17583198 AGGCTTTGAAAC-TTTG-AAAATAAAATGTTTGCCCAAAATTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATG-CTCCCCACAACTG
* *
17583239 AGGCTTTGGAACTTTTGAAAAATAAAATGCTCTCCCACAATTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTC-CCCACAACTG
* * *
17583282 AGGATATGTAAC-TTTGAAAAATAAAATGCTCCCC-CACACTTG
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACA-AC-TG
* *
17583324 AGGCTTTGAAACTTTTGAGAAATGAAAT
1 AGGCTTTGAAACTTTTGAAAAATAAAAT
17583352 ATCATCATTT
Statistics
Matches: 271, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
40 12 0.04
41 50 0.18
42 83 0.31
43 126 0.46
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (42 bp):
AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAACTG
Found at i:17583221 original size:126 final size:125
Alignment explanation
Indices: 17582985--17583338 Score: 385
Period size: 126 Copynumber: 2.8 Consensus size: 125
17582975 CCCCTGCAAT
* * **
17582985 TAAGGCTTTGAAACTTTT-TAAAATAAAATGCTCCCCATAATTGAAACTTTGAAACTTTGGAAAA
1 TAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAATTGAGGCTTTGAAACTTT-GAAAA
** * * *
17583049 TA-AAATGCTCTCTTATAACTGAGGCTTTGAAACTTTTGAAAAATAAAATG-CTCCCTCACAAC
65 TATAAATGCTC-CCCACAAATGAGGCTTTGAAAC-TTTGAAAAATAAAATGTCTCCC-CAAAAC
* * *
17583111 TAAGGTTTTGAAACTTTTGAAAAATAAAATACTCCCCTACAACTGAGGCTTTGAAACTTTGAAAA
1 TAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCC-ACAATTGAGGCTTTGAAACTTTGAAAA
* * * *
17583176 TATAAACTGCTCCCCACAAATAAGGCTTTGAAACTTTG-AAAATAAAATGTTTGCCCAAAAT
65 TATAAA-TGCTCCCCACAAATGAGGCTTTGAAACTTTGAAAAATAAAATGTCTCCCCAAAAC
* * * * *
17583237 TGAGGCTTTGGAACTTTTGAAAAATAAAATGCTCTCCCACAATTGAGGATATGTAACTTTGAAAA
1 TAAGGCTTTGAAACTTTTGAAAAATAAAATGCTC-CCCACAATTGAGGCTTTGAAACTTTGAAAA
**
17583302 -ATAAAATGCTCCCCCACACTTGAGGCTTTGAAACTTT
65 TAT-AAATGCT-CCCCACAAATGAGGCTTTGAAACTTT
17583339 TGAGAAATGA
Statistics
Matches: 193, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
125 6 0.03
126 111 0.58
127 33 0.17
128 38 0.20
129 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
TAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAATTGAGGCTTTGAAACTTTGAAAAT
ATAAATGCTCCCCACAAATGAGGCTTTGAAACTTTGAAAAATAAAATGTCTCCCCAAAAC
Found at i:17583339 original size:85 final size:83
Alignment explanation
Indices: 17582987--17583351 Score: 389
Period size: 85 Copynumber: 4.3 Consensus size: 83
17582977 CCTGCAATTA
* * *
17582987 AGGCTTTGAAACTTTT-TAAAATAAAATGCTCCCCATAATTGAA--ACTTTGAAACTTTGGAAAA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAATT-AAGGA-TTTGAAACTTTGAAAAA
* **
17583049 TAAAATGCTCTCTTATAACTG
64 TAAAATGCTCCCCCA-AACTG
* *
17583070 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCTCACAACTAAGGTTTTGAAACTTTTGAAAAA
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCC-CACAATTAAGGATTTGAAAC-TTTGAAAAA
* *
17583135 TAAAATACTCCCCTACAACTG
64 TAAAATGCTCCCCCA-AACTG
* * *
17583156 AGGCTTTGAAAC-TTTGAAAATATAAACTGCTCCCCACAAATAAGGCTTTGAAACTTTG-AAAAT
1 AGGCTTTGAAACTTTTGAAAA-ATAAAATGCTCCCCACAATTAAGGATTTGAAACTTTGAAAAAT
* * * *
17583219 AAAATGTTTGCCCAAAATTG
65 AAAATG-CTCCCCCAAACTG
* * * *
17583239 AGGCTTTGGAACTTTTGAAAAATAAAATGCTCTCCCACAATTGAGGATATGTAACTTTGAAAAAT
1 AGGCTTTGAAACTTTTGAAAAATAAAATGCTC-CCCACAATTAAGGATTTGAAACTTTGAAAAAT
*
17583304 AAAATGCTCCCCCACACTTG
65 AAAATGCTCCCCCAAAC-TG
* *
17583324 AGGCTTTGAAACTTTTGAGAAATGAAAT
1 AGGCTTTGAAACTTTTGAAAAATAAAAT
17583352 ATCATCATTT
Statistics
Matches: 239, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
83 51 0.21
84 62 0.26
85 77 0.32
86 49 0.21
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (83 bp):
AGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCACAATTAAGGATTTGAAACTTTGAAAAATA
AAATGCTCCCCCAAACTG
Found at i:17583541 original size:13 final size:13
Alignment explanation
Indices: 17583523--17583547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17583513 TTTCAAACAT
17583523 ATGCAATGAATGC
1 ATGCAATGAATGC
17583536 ATGCAATGAATG
1 ATGCAATGAATG
17583548 AAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:17587853 original size:7 final size:7
Alignment explanation
Indices: 17587841--17587868 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17587831 TATTCCTAAA
17587841 ATTTATT
1 ATTTATT
17587848 ATTTATT
1 ATTTATT
17587855 ATTTATT
1 ATTTATT
17587862 ATTTATT
1 ATTTATT
17587869 TCTAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTATT
Found at i:17588852 original size:18 final size:20
Alignment explanation
Indices: 17588818--17588854 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17588808 CACTCAACAC
17588818 AAACTCCTTGTATAACATAA
1 AAACTCCTTGTATAACATAA
17588838 AAACTCCTT-TA-AACATA
1 AAACTCCTTGTATAACATA
17588855 GGCTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (20 bp):
AAACTCCTTGTATAACATAA
Found at i:17588937 original size:41 final size:41
Alignment explanation
Indices: 17588864--17588965 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
17588854 AGGCTTAATG
* *
17588864 ACTTT-AAAAAAAAAAAGCTCCTCTAAATAGAGGCTCAACA
1 ACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACA
* * * * *
17588904 ACTTTGGAAAATAAAAGGCTCCTC-CAATCAGAGGTTTAATA
1 ACTTTGAAAAATAAAAGGCTCCTCTAAAT-AGAGGCTCAACA
*
17588945 ACTTTGAAAAATACAAGGCTC
1 ACTTTGAAAAATAAAAGGCTC
17588966 ATTGACAATC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 8 0.16
41 43 0.84
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (41 bp):
ACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCTCAACA
Found at i:17589366 original size:21 final size:21
Alignment explanation
Indices: 17589342--17589562 Score: 140
Period size: 21 Copynumber: 9.8 Consensus size: 21
17589332 TAAAAAATTA
*
17589342 TCAAAGATTCTAATTTAAGAC
1 TCAAAGATTCTCATTTAAGAC
* *
17589363 TCAAAGGTTCTCATTTGAAAATGTC
1 TCAAAGATTCTCATTT---AA-GAC
* *
17589388 TTAAAGATTTTCATTTAAGAC
1 TCAAAGATTCTCATTTAAGAC
*
17589409 TCAAAGATTCTCATTTGAAAATATC
1 TCAAAGATTCTCATTT---AAGA-C
* * *
17589434 TTAAAAATTATCATTTAAGAC
1 TCAAAGATTCTCATTTAAGAC
* *
17589455 TCAAAGCTTCTCATTTCAAAAC
1 TCAAAGATTCTCATTT-AAGAC
*
17589477 ATCTTAAAGATTTTCATTTAAGAC
1 -TC--AAAGATTCTCATTTAAGAC
*
17589501 TCAAAGTTTCTCATTTGAA-ATC
1 TCAAAGATTCTCATTT-AAGA-C
17589523 GTCTTAAA-AGTTCTCATTTAAGAC
1 -TC--AAAGA-TTCTCATTTAAGAC
*
17589547 TAAAAGATTCTCATTT
1 TCAAAGATTCTCATTT
17589563 GAATTTTAGA
Statistics
Matches: 154, Mismatches: 26, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
21 68 0.44
22 13 0.08
23 7 0.05
24 12 0.08
25 54 0.35
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAGAC
Found at i:17589404 original size:46 final size:46
Alignment explanation
Indices: 17589344--17589848 Score: 602
Period size: 46 Copynumber: 10.7 Consensus size: 46
17589334 AAAAATTATC
* * *
17589344 AAAGATTCTAATTTAAGACTCAAAGGTTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
*
17589390 AAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
* * * * *
17589436 AAAAATTATCATTTAAGACTCAAAGCTTCTCATTTCAAAACATCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
* * *
17589482 AAAGATTTTCATTTAAGACTCAAAGTTTCTCATTTG-AAATCGTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT-ATCTT
*
17589528 AAA-AGTTCTCATTTAAGACTAAAAGATTCTCATTTGAATTTTAGAT-TCCTT
1 AAAGA-TTCTCATTTAAGACTCAAAGATTCTCATTTGAA----A-ATAT-CTT
*
17589579 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
* * * *
17589625 AAAGATTCTTATTTAAGACTCAAAATGTCTTAAAGATTTTCATTTAAAAACATCTT
1 AAAGATTCTCATTTAAGA--C------TC--AAAGATTCTCATTTGAAAATATCTT
* * *
17589681 AAAGATTCTCATTTAAGATTCAAAGCTTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
*
17589727 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAATATCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
* *
17589773 AAAGATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
*
17589819 AAAGATTTTCATTTAAGACTCAAAGATTCT
1 AAAGATTCTCATTTAAGACTCAAAGATTCT
17589849 TATTCGAAGA
Statistics
Matches: 399, Mismatches: 39, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
45 4 0.01
46 304 0.76
47 3 0.01
48 3 0.01
50 1 0.00
51 39 0.10
52 3 0.01
54 2 0.01
56 40 0.10
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATATCTT
Found at i:17589603 original size:21 final size:21
Alignment explanation
Indices: 17589579--17589648 Score: 86
Period size: 21 Copynumber: 3.1 Consensus size: 21
17589569 TAGATTCCTT
17589579 AAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
*
17589600 AAAGATTCTCATTTGAAAACATC
1 AAAGATTCTCATTT-AAGAC-TC
*
17589623 TTAAAGATTCTTATTTAAGACTC
1 --AAAGATTCTCATTTAAGACTC
17589646 AAA
1 AAA
17589649 ATGTCTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 4 0.10
24 4 0.10
25 13 0.31
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGACTC
Found at i:17589710 original size:21 final size:21
Alignment explanation
Indices: 17589681--17589848 Score: 147
Period size: 21 Copynumber: 7.4 Consensus size: 21
17589671 AAAACATCTT
17589681 AAAGATTCTCATTTAAGATTC
1 AAAGATTCTCATTTAAGATTC
* *
17589702 AAAGCTTCTCATTTGAAAATGTC
1 AAAGATTCTCATTT-AAGAT-TC
*
17589725 TTAAAGATTCTCATTTAAGACTC
1 --AAAGATTCTCATTTAAGATTC
*
17589748 AAAGATTCTCATTTAAAAATATC
1 AAAGATTCTCATTT-AAGAT-TC
*
17589771 TTAAAGATTCTCATTTAAGACTC
1 --AAAGATTCTCATTTAAGATTC
* *
17589794 AAAGCTTCTCATTTGAAAATGTC
1 AAAGATTCTCATTT-AAGAT-TC
* *
17589817 TTAAAGATTTTCATTTAAGACTC
1 --AAAGATTCTCATTTAAGATTC
17589840 AAAGATTCT
1 AAAGATTCT
17589849 TATTCGAAGA
Statistics
Matches: 118, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
21 48 0.41
22 10 0.08
23 12 0.10
24 9 0.08
25 39 0.33
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGATTC
Found at i:17589772 original size:148 final size:150
Alignment explanation
Indices: 17589524--17589796 Score: 419
Period size: 148 Copynumber: 1.8 Consensus size: 150
17589514 TTTGAAATCG
17589524 TCTTAAAAGTTCTCATTTAAGACTAAAAGATTCTCATTTGAATTTTAGATTCCTTAAAGATTCTC
1 TCTTAAAAGTTCTCATTTAAGACTAAAAGATTCTCATTTGAA---TAGATTCCTTAAAGATTCTC
* *
17589589 ATTTAAGACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTTATTTAAGACTCAAAATGTC
63 ATTTAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAATGTC
17589654 TTAAAGATTTTCATTTAAAAACA
128 TTAAAGATTTTCATTTAAAAACA
* * *
17589677 TCTT-AAAGATTCTCATTTAAGATTCAAAGCTTCTCATTTGAA-A-ATGT-CTTAAAGATTCTCA
1 TCTTAAAAG-TTCTCATTTAAGACTAAAAGATTCTCATTTGAATAGAT-TCCTTAAAGATTCTCA
*
17589738 TTTAAGACTCAAAGATTCTCATTTAAAAATATCTTAAAGATTCTCATTTAAGACTCAAA
64 TTTAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAA
17589797 GCTTCTCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
148 72 0.64
149 2 0.02
152 4 0.04
153 34 0.30
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (150 bp):
TCTTAAAAGTTCTCATTTAAGACTAAAAGATTCTCATTTGAATAGATTCCTTAAAGATTCTCATT
TAAGACTCAAAGATTCTCATTTAAAAACATCTTAAAGATTCTCATTTAAGACTCAAAATGTCTTA
AAGATTTTCATTTAAAAACA
Found at i:17591274 original size:7 final size:7
Alignment explanation
Indices: 17591262--17591287 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17591252 CTTTTCTCTC
17591262 TTTTTCA
1 TTTTTCA
17591269 TTTTTCA
1 TTTTTCA
17591276 TTTTTCA
1 TTTTTCA
17591283 TTTTT
1 TTTTT
17591288 TTTTCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:17591320 original size:17 final size:18
Alignment explanation
Indices: 17591277--17591323 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
17591267 CATTTTTCAT
*
17591277 TTTTCATTTTTTTTTCTC
1 TTTTCATTTTTTCTTCTC
17591295 TTTTC-TTTTTATCTT-TC
1 TTTTCATTTTT-TCTTCTC
17591312 -TTTCATTTTTTC
1 TTTTCATTTTTTC
17591324 ACGCATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCATTTTTTCTTCTC
Found at i:17591321 original size:33 final size:33
Alignment explanation
Indices: 17591253--17591322 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
17591243 TGAGTTTTCC
17591253 TTTTCTCTCTTTTTCATTTTTCATTTTTCATTT
1 TTTTCTCTCTTTTTCATTTTTCATTTTTCATTT
* * *
17591286 TTTTTTCTC-TTTTCTTTTTATCTTTCTTTCATTT
1 TTTTCTCTCTTTTTCATTTT-TCATT-TTTCATTT
17591320 TTT
1 TTT
17591323 CACGCATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 9 0.28
33 12 0.38
34 11 0.34
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTTCTCTCTTTTTCATTTTTCATTTTTCATTT
Found at i:17591322 original size:24 final size:23
Alignment explanation
Indices: 17591247--17591323 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
17591237 TCAATTTGAG
* *
17591247 TTTTCCTTTTCTCTCTTTTTCA-T
1 TTTTCTTTTTATCT-TTTTTCATT
* *
17591270 TTTTCATTTTTCATTTTTTTTTC-TC
1 TTTTC-TTTTT-A-TCTTTTTTCATT
17591295 TTTTCTTTTTATCTTTCTTTCATT
1 TTTTCTTTTTATCTTT-TTTCATT
17591319 TTTTC
1 TTTTC
17591324 ACGCATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
22 4 0.10
23 10 0.24
24 15 0.36
25 11 0.26
26 2 0.05
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTTATCTTTTTTCATT
Found at i:17591693 original size:20 final size:20
Alignment explanation
Indices: 17591655--17591692 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17591645 ATTCATTTCT
17591655 CTTTTCTCTCTTTTATTTTG
1 CTTTTCTCTCTTTTATTTTG
*
17591675 CTTTTCTTTCTTTT-TTTT
1 CTTTTCTCTCTTTTATTTT
17591693 TTCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (20 bp):
CTTTTCTCTCTTTTATTTTG
Found at i:17596029 original size:13 final size:13
Alignment explanation
Indices: 17596009--17596069 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
17595999 ATACTAAAGG
17596009 AAAA-AAAATACA
1 AAAATAAAATACA
*
17596021 AAAATAAAATACT
1 AAAATAAAATACA
*
17596034 TAAATAAAATA-A
1 AAAATAAAATACA
* *
17596046 ATAAGAAAATATCA
1 AAAATAAAATA-CA
*
17596060 AAAAAAAAAT
1 AAAATAAAAT
17596070 TGAAAATGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 12 0.32
13 17 0.45
14 9 0.24
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAATAAAATACA
Found at i:17596048 original size:30 final size:30
Alignment explanation
Indices: 17595988--17596056 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
17595978 AATTTAATAG
17595988 AAGAGAAA-AAAATACTAAAGGAAAAAAAAT
1 AAGA-AAATAAAATACTAAAGGAAAAAAAAT
* *
17596018 ACA-AAAATAAAATACTTAAA-TAAAATAAAT
1 A-AGAAAATAAAATAC-TAAAGGAAAAAAAAT
17596048 AAGAAAATA
1 AAGAAAATA
17596057 TCAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
29 4 0.12
30 24 0.73
31 5 0.15
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.16
Consensus pattern (30 bp):
AAGAAAATAAAATACTAAAGGAAAAAAAAT
Found at i:17598389 original size:8 final size:8
Alignment explanation
Indices: 17598376--17598402 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17598366 CCCACTTCTG
17598376 TTTTTTAT
1 TTTTTTAT
17598384 TTTTTTAT
1 TTTTTTAT
17598392 TTTTTTAT
1 TTTTTTAT
17598400 TTT
1 TTT
17598403 CTATGTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:17601555 original size:23 final size:21
Alignment explanation
Indices: 17601495--17601572 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
17601485 AACATAATAT
17601495 AATATATACAAGAAATAACAA
1 AATATATACAAGAAATAACAA
* *
17601516 AATATA-A-AAGGTTAATATGCAAA
1 AATATATACAA-G-AAATA-AC-AA
17601539 AATATATACAAGAAATAACATA
1 AATATATACAAGAAATAACA-A
17601561 AAT-TA-ACAAGAA
1 AATATATACAAGAA
17601573 TAATAACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
19 2 0.04
20 9 0.20
21 13 0.28
22 6 0.13
23 12 0.26
24 2 0.04
25 2 0.04
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.22
Consensus pattern (21 bp):
AATATATACAAGAAATAACAA
Found at i:17602178 original size:28 final size:28
Alignment explanation
Indices: 17602138--17602191 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
17602128 AAGGCTTTAC
*
17602138 GAAGCCCTTTATGTCTACCTGTCACTAT
1 GAAGCCCCTTATGTCTACCTGTCACTAT
17602166 GAAGCCCCTTATGTCTACCTGTCACT
1 GAAGCCCCTTATGTCTACCTGTCACT
17602192 TAGTACAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.33
Consensus pattern (28 bp):
GAAGCCCCTTATGTCTACCTGTCACTAT
Found at i:17603159 original size:20 final size:20
Alignment explanation
Indices: 17603134--17603171 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17603124 CTACATAAGG
17603134 GATCGATCACCC-AAAGAACA
1 GATCGATC-CCCTAAAGAACA
17603154 GATCGATCCCCTAAAGAA
1 GATCGATCCCCTAAAGAA
17603172 AGGGATCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (20 bp):
GATCGATCCCCTAAAGAACA
Found at i:17610946 original size:20 final size:20
Alignment explanation
Indices: 17610921--17610973 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
17610911 TTAGAAAAAG
17610921 GATCGATCCCCTACA-TAAGA
1 GATCGATCCCCTA-AGTAAGA
* *
17610941 GATCGATCACCTAAGGTAAGG
1 GATCGATCCCCTAA-GTAAGA
17610962 GATCGATCCCCT
1 GATCGATCCCCT
17610974 CTTAAAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.43
21 15 0.54
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (20 bp):
GATCGATCCCCTAAGTAAGA
Found at i:17610965 original size:21 final size:20
Alignment explanation
Indices: 17610920--17610989 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
17610910 TTTAGAAAAA
*
17610920 GGATCGATCCCCTACATAAG
1 GGATCGATCACCTACATAAG
*
17610940 AGATCGATCACCTA-AGGTAAG
1 GGATCGATCACCTACA--TAAG
* *
17610961 GGATCGATCCCCT-CTTAAAG
1 GGATCGATCACCTACAT-AAG
17610981 GGATCGATC
1 GGATCGATC
17610990 GATTGTTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.05
20 24 0.59
21 15 0.37
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (20 bp):
GGATCGATCACCTACATAAG
Found at i:17612528 original size:36 final size:34
Alignment explanation
Indices: 17612481--17612569 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 34
17612471 TATATTAATT
* * *
17612481 ATCATGCAATAATATAAAATACCATACAAATATATA
1 ATCATGAAATAAAATAAAAT--CACACAAATATATA
*
17612517 ATCATGAAATAAAATATAATCACACAAATATAT-
1 ATCATGAAATAAAATAAAATCACACAAATATATA
* *
17612550 -T-ATGAAATTAAATATAATCA
1 ATCATGAAATAAAATAAAATCA
17612570 TGCAATTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
31 18 0.38
32 1 0.02
34 12 0.25
36 17 0.35
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (34 bp):
ATCATGAAATAAAATAAAATCACACAAATATATA
Found at i:17612555 original size:31 final size:33
Alignment explanation
Indices: 17612506--17612569 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 33
17612496 AAAATACCAT
17612506 ACAAATATATAATCATGAAATAAAATATAATCAC
1 ACAAATATAT-ATCATGAAATAAAATATAATCAC
*
17612540 ACAAATATAT-T-ATGAAATTAAATATAATCA
1 ACAAATATATATCATGAAATAAAATATAATCA
17612570 TGCAATTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.62
32 1 0.03
34 10 0.34
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (33 bp):
ACAAATATATATCATGAAATAAAATATAATCAC
Found at i:17612728 original size:24 final size:23
Alignment explanation
Indices: 17612679--17612754 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
17612669 ATGCAATAAT
* *
17612679 AATAAATAAATAAATAA-CTATGCA
1 AATAAAT-AATTAATAATC-ATACA
17612703 AATAAATATATTAATAATCATACA
1 AATAAATA-ATTAATAATCATACA
* * *
17612727 AACAAATGAATTTATAATCATATA
1 AATAAAT-AATTAATAATCATACA
17612751 AATA
1 AATA
17612755 GACATGCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 40 0.93
25 2 0.05
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAAATAATTAATAATCATACA
Found at i:17612786 original size:32 final size:32
Alignment explanation
Indices: 17612739--17612820 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
17612729 CAAATGAATT
* *
17612739 TATAATCATATAAATAGACATGCAATTAAATA
1 TATAATCATGTAAATAAACATGCAATTAAATA
* **
17612771 TATAATCATGCAAATAAACATGTTATTAAATA
1 TATAATCATGTAAATAAACATGCAATTAAATA
17612803 TATAATCATGTAAATAAA
1 TATAATCATGTAAATAAA
17612821 TATATTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (32 bp):
TATAATCATGTAAATAAACATGCAATTAAATA
Found at i:17612807 original size:20 final size:20
Alignment explanation
Indices: 17612784--17612825 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17612774 AATCATGCAA
* *
17612784 ATAAACATGTTATTAAATAT
1 ATAAACATGTAAATAAATAT
*
17612804 ATAATCATGTAAATAAATAT
1 ATAAACATGTAAATAAATAT
17612824 AT
1 AT
17612826 TAATAATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
ATAAACATGTAAATAAATAT
Found at i:17612831 original size:24 final size:23
Alignment explanation
Indices: 17612804--17612945 Score: 114
Period size: 24 Copynumber: 6.1 Consensus size: 23
17612794 TATTAAATAT
17612804 ATAATCATGTAAATAAATATATTA
1 ATAATCATG-AAATAAATATATTA
* *
17612828 ATAATCAAGTAATTAAATATATTA
1 ATAATCATG-AAATAAATATATTA
* *
17612852 ATAATCATGCAATCAAAT-TA-AA
1 ATAATCATGAAAT-AAATATATTA
*
17612874 CATAATCATACAAATAAATATATTA
1 -ATAATCAT-GAAATAAATATATTA
*
17612899 ATAATCATG---CAAATATATTA
1 ATAATCATGAAATAAATATATTA
**
17612919 ATAAATCACACAAATAAATATATTA
1 AT-AATCA-TGAAATAAATATATTA
17612944 AT
1 AT
17612946 CATGCAAACA
Statistics
Matches: 94, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
20 12 0.13
21 5 0.05
22 1 0.01
23 16 0.17
24 47 0.50
25 13 0.14
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAATCATGAAATAAATATATTA
Found at i:17612893 original size:47 final size:45
Alignment explanation
Indices: 17612841--17612945 Score: 149
Period size: 47 Copynumber: 2.3 Consensus size: 45
17612831 ATCAAGTAAT
*
17612841 TAAATATATTAATAATCATGC-AATCAAATTAAACATAATCATACAAA
1 TAAATATATTAATAATCATGCAAAT-AAATT-AACA-AATCACACAAA
* *
17612888 TAAATATATTAATAATCATGCAAATATATTAATAAATCACACAAA
1 TAAATATATTAATAATCATGCAAATAAATTAACAAATCACACAAA
17612933 TAAATATATTAAT
1 TAAATATATTAAT
17612946 CATGCAAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
45 23 0.43
46 3 0.06
47 25 0.46
48 3 0.06
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.32
Consensus pattern (45 bp):
TAAATATATTAATAATCATGCAAATAAATTAACAAATCACACAAA
Found at i:17612914 original size:20 final size:20
Alignment explanation
Indices: 17612889--17612953 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
17612879 TCATACAAAT
17612889 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
**
17612909 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCATGC
* *
17612930 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
17612951 AAA
1 AAA
17612954 CAAATATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.32
21 22 0.59
22 3 0.08
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:17612932 original size:21 final size:20
Alignment explanation
Indices: 17612889--17612934 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
17612879 TCATACAAAT
**
17612889 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
17612909 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
17612930 AAATA
1 AAATA
17612935 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:17612946 original size:21 final size:21
Alignment explanation
Indices: 17612876--17612964 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
17612866 AAATTAAACA
*
17612876 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
17612897 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
17612921 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
** *
17612942 TAATCATGCAAACAAATATAT
1 TAATCACACAAATAAATATAT
17612963 TA
1 TA
17612965 GGCAAATAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
21 34 0.64
22 2 0.04
23 3 0.06
24 14 0.26
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:17616497 original size:11 final size:11
Alignment explanation
Indices: 17616481--17616520 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
17616471 AATCTCATAA
17616481 GAGATTTGTTT
1 GAGATTTGTTT
*
17616492 GAGATTTGTTA
1 GAGATTTGTTT
17616503 GAGATTTGTTT
1 GAGATTTGTTT
*
17616514 GAAATTT
1 GAGATTT
17616521 TTCAGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:17616636 original size:52 final size:52
Alignment explanation
Indices: 17616547--17616692 Score: 213
Period size: 52 Copynumber: 2.8 Consensus size: 52
17616537 TGGACAAGAA
*
17616547 GACTTGCAAAAGAAGAATTCT-AAAAGAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAAGAAAGAG-ATTCTTAATAGGTAAGATT
*
17616599 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGATT
1 GACTTGCAAAAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGATT
* * * * *
17616651 GACTTACAAAAGAAGAATTCTAAGAGGAGAGGGATTCTTAAT
1 GACTTGCAAAAGAAGAATTCTAAAAAGAAAGAGATTCTTAAT
17616693 GGACAAGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 74 0.87
53 11 0.13
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGATT
Found at i:17627363 original size:51 final size:51
Alignment explanation
Indices: 17627285--17627387 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
17627275 TTTTCCCCCT
* *
17627285 TCCATTCATTTCCATTTTCCTTTTACTAGATTTTTTCTATAATAATGTAAG
1 TCCATTCATTTCCATTTTCCTTCTACTAGATTTCTTCTATAATAATGTAAG
17627336 TCCATTCATTTCCATTTTCCTTCTACTAGATTTCTTCTATAATAATGTAAG
1 TCCATTCATTTCCATTTTCCTTCTACTAGATTTCTTCTATAATAATGTAAG
17627387 T
1 T
17627388 TAGTTTGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (51 bp):
TCCATTCATTTCCATTTTCCTTCTACTAGATTTCTTCTATAATAATGTAAG
Found at i:17635547 original size:161 final size:161
Alignment explanation
Indices: 17635260--17637954 Score: 2027
Period size: 161 Copynumber: 16.8 Consensus size: 161
17635250 AAACTTGCAC
* * * * * * *
17635260 TTTATGTTTGTTTAGAATTTTTTTATGTCATTAAAATGCAAAAATTCAAATTTACTGTTATTGTT
1 TTTATGTTTGTTTAGAA-CTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTT
* * * * ** * *
17635325 TTGTTTTAATAGTTTAAATAGCTTCAATTTATGATAGTAAACTTGCTT-GAATGATTGAACTTAG
65 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTG-TTCGAATGATTGAACTTGG
* * *
17635389 TTTCCAGGGTTTATATGTGTGAAAAAGTTATGG
129 TTTTCATGGTTTATATGTGTGAAAAAGTTATCG
* * * *
17635422 TTTATATTTGTTTAGAACTTTTTATGCCGTTGAAAGGCAAAAATGCAAGTTTGCAATTATTGTTC
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* *
17635487 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGAATGAACTTAGTT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
* * * * *
17635552 TTCACGATTGATATGTGTGAAAAAGTTACCA
131 TTCATGGTTTATATGTGTGAAAAAGTTATCG
* * * *
17635583 TTTAT-TTCTATTTAGAACTTTTTATGTCATTAAAAGGTAAAAATGCAAGTTTCCAGTTATTGTT
1 TTTATGTT-TGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTT
* * * * * *
17635647 CTATTTTAACAATTTTGATAGCTTCAATACATTATATTAAACTTGTTTGAATTATTAAACTTGG-
65 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
* * * *
17635711 TTTCAATGATTGAT-T-TGTG----A-TAATGG
130 TTTC-ATGGTTTATATGTGTGAAAAAGTTATCG
* * * * * **
17635737 TTTATGTCTATTTCAG-ACTTTTTATGCCATT-AAAGATCAAAATTGTAA-TTATGTTGTTATTG
1 TTTATGTTTGTTT-AGAACTTTTTATGCCATTAAAAG-GCAAAAATGCAAGTT-TGCAGTTATTG
* * * *
17635799 TTCTATTTTAAGAGTTTAGATAGCTTAAATACATGATATTAAACTTATTTGAATGATTGAACTTG
63 TTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTG
* *
17635864 GTTTTCATGGTTTATATATGTGAAAAAAAGTTATGG
128 GTTTTCATGGTTTATATGTGTG--AAAAAGTTATCG
* * * * * *
17635900 TTTATGTTTGTTTAGGACTTTTTGTGCCATTAAAAGACAAAAATGCAAGTTTGTAGTTATTATTT
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* * * * * * *
17635965 TGTTTTAACAATTTATATAGCTTTAATACATGATATTAAACTTGTTCAAATAATTGAACTTAG-T
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
** * * * *
17636029 TTCACAGTTGATATGTATGAAATAGTTA-CTA
131 TTCATGGTTTATATGTGTGAAAAAGTTATC-G
* * * ** * * * *
17636060 TTTATGTCTATTTAGAACCTTTTATATCGTTAAAAGGCAAAAATGCAAGTTTCCAGTTATTATTT
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* * * * * * * *
17636125 TA-TTTAATAATTTTGATAGCTTCGATACATTATATTAAAATTGTTTGAATGATTAAACTTGGTT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
* * * *
17636189 TCCAT-GATT-GATGTGTGAAAAAGTTA-CAA
131 TTCATGGTTTATATGTGTGAAAAAGTTATC-G
* * * * * *
17636218 TTTATGTCTGTTTCAG-ACTTTTTATG-CATT-AAAGATCAAAATTGTAA-TTAAGTAGTTATTG
1 TTTATGTTTGTTT-AGAACTTTTTATGCCATTAAAAG-GCAAAAATGCAAGTT-TGCAGTTATTG
* * * * * * *
17636279 TTTTGTTTTAACAGTTTAAATAACTTAAATACATGATATTAAACTT-CTCTGAATGATTTAACTT
63 TTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAATGATTGAACTT
* *
17636343 GGTTTTCATGGTTTATATGTATGAATAAAGTTGT-G
127 GGTTTTCATGGTTTATATGTGTGAA-AAAGTTATCG
* * * * * * *
17636378 ATTTATGTTCGTTTAGGACTTTTTGTGCTATTGAAAGGCAAAAATGCAAGTTTTGTAGTTATTAT
1 -TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAG-TTTGCAGTTATTGT
* * * * * ** *
17636443 TTTGTTTTAACAATTTATATGGCTTCAATACATGATATTAAACTTGCCCAAATGATTGAACTTGG
64 TCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
* *
17636508 TTTACATGGTTTATATGTGTGAAAAAATTATCG
129 TTTTCATGGTTTATATGTGTGAAAAAGTTATCG
* ** * *
17636541 TTTATGTTTGCTTATG-ACTTTTTATGCCATTGGAAGGCAAAAATGCAAGTTTACAATTATTGTT
1 TTTATGTTTGTTTA-GAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTT
* * * * **
17636605 CTATTTTAATAGTTTAGATAGCCTCAATATATGATATTAAACTTATTCGAATGATTGAACTTAAT
65 CTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
** * * *
17636670 TTTCACAGTTGATATGTGTGAAAAAGTTACCC
130 TTTCATGGTTTATATGTGTGAAAAAGTTATCG
* * * * ** * * * *
17636702 TTTATATCTATTTAAAACTTTTTATG-TGTTAAAAGACAAAAATGCAACTTTTCAATTATTGTTC
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* * * * * * *
17636766 TATTTTAACAATTTTGATAGCTTTAATACATTATATTAAATTTGTTTGAATGATTAAACTTGGTT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
** * **
17636831 TTCAT-AATT-GATGCATGAAAAAGTTA-CGG
131 TTCATGGTTTATATGTGTGAAAAAGTTATC-G
* * * * * * * *
17636860 TTTATGTCTGTTTCAG-ATTTTTTGTGCC-TTTAAAGATCAAAATTGTAA-TTATGTAGTTATTG
1 TTTATGTTTGTTT-AGAACTTTTTATGCCATTAAAAG-GCAAAAATGCAAGTT-TGCAGTTATTG
* * * * *
17636922 TTCTATTTTAAAAGTTTAGATAGCTTAAATATATGATATTAAACTTATCCGAATGATTGAACTTG
63 TTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTG
* * *
17636987 GTTTTCATTGTTTATATGTGTGAAAAAAGTTGTGG
128 GTTTTCATGGTTTATATGTGTG-AAAAAGTTATCG
* * * * * * *
17637022 TTTATGTTTGTTTAGAACTTTTTGTGCCATTGAAAGGTAAAAATGCAAGTTTACAATTATTATTT
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* * * * * *
17637087 TGTTTTAACAGTTTATATAGCTTCAATACATGGTATTAAACTTGTCCAAATGATTGAACATGGTT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
* ** *
17637152 TTCACGGTTTATATGAATGAAAAAGTTATCA
131 TTCATGGTTTATATGTGTGAAAAAGTTATCG
* * *
17637183 TTTATGTTTGTTTATG-ACTTTTTATCCCGTTGAAAAGGCAAAAATGCAAGTTTGTAGTTATTGT
1 TTTATGTTTGTTTA-GAACTTTTTATGCCATT-AAAAGGCAAAAATGCAAGTTTGCAGTTATTGT
* * * * *
17637247 TTTATTTTAACAGTTTAGATAACTTCAATACATGATATTACATTTG-TCTGAATGATTAAACTTG
64 TCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAATGATTGAACTTG
* * * * * * *
17637311 GTTTTCACGATTGATATGTATGAAAAAATAACCG
128 GTTTTCATGGTTTATATGTGTGAAAAAGTTATCG
* * * * * * * *
17637345 TTTATGTCTGTTTAAAACTTTTTGTGTCATTAAAAGGCAAAAATGCAAATTTGTAATTACTGTTC
1 TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
* * * * * ** *
17637410 TATTTTAAGAGTTTGGATAAG-TTTAATACATGATATTAAACTTGTCCAAATGATTGATGTT-TT
66 TATTTTAACAGTTTAGAT-AGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
* * *
17637473 TTTCCATGGTTGATATATGTGAAAAAATTATCG
130 TTT-CATGGTTTATATGTGTGAAAAAGTTATCG
* * * * * *** *** * *
17637506 TTTATATCTATTTAGGA-TATTTTGTGTTGTTAAAAGGCAAAAAAATAATTTTACAGTTATAT-T
1 TTTATGTTTGTTTAGAACT-TTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTAT-TGT
* * * * * *
17637569 TCTGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAATTTGG
64 TCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
* * * * * *
17637634 TTTCCAAT-ATTGATATGTGTTAAAAAGTTGTTG
129 TTTTC-ATGGTTTATATGTGTGAAAAAGTTATCG
** * * ** * *
17637667 TTTATGTTTGTTTA-ATACTTTTTGCGCCATTAAAGGGTAAAAATATAATTTTGCAGTTATATTT
1 TTTATGTTTGTTTAGA-ACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTAT-TGT
* * * * * *
17637731 TATATTTTAACAGTTTAGATAGCTTCGATATATTATATTAAACTTG-TCTAAATGTTTGAACTT-
64 TCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTC-GAATGATTGAACTTG
* * * ** *
17637794 ATTTGCCAT-GTTTGGTATGCATGAATAAGTTA-CGG
128 GTTT-TCATGGTTT-ATATGTGTGAAAAAGTTATC-G
** * * * *
17637829 TTTATGTTTGTTTATG-AC-TTTT-TGTAATGTCAAAAGGCAAAAAAGCAAATTTGTAGTTATTA
1 TTTATGTTTGTTTA-GAACTTTTTATGCCAT-T-AAAAGGCAAAAATGCAAGTTTGCAGTTATTG
* * * * * *
17637891 TTATATTTTAACAATTTAGATAAC-TCTAGTATATAATATTAAAC-TGTTTCGAATG-TTGGAAC
63 TTCTATTTTAACAGTTTAGATAGCTTC-AATACATGATATTAAACTTG-TTCGAATGATT-GAAC
17637953 TT
125 TT
17637955 AATTGCTACG
Statistics
Matches: 2020, Mismatches: 433, Indels: 161
0.77 0.17 0.06
Matches are distributed among these distances:
153 6 0.00
154 107 0.05
155 9 0.00
156 10 0.00
157 25 0.01
158 129 0.06
159 140 0.07
160 191 0.09
161 733 0.36
162 458 0.23
163 202 0.10
164 10 0.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (161 bp):
TTTATGTTTGTTTAGAACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTGCAGTTATTGTTC
TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTT
TTCATGGTTTATATGTGTGAAAAAGTTATCG
Found at i:17636987 original size:643 final size:638
Alignment explanation
Indices: 17635260--17637958 Score: 2486
Period size: 643 Copynumber: 4.2 Consensus size: 638
17635250 AAACTTGCAC
* * * * * *
17635260 TTTATGTTTGTTTA-GAATTTTTTTATGTCATTAAAATGCAAAAATTCAAATTTACTGTTATTGT
1 TTTATGTTTGTTTATG-A-CTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTACAGTTATTGT
* * * ** *
17635324 TTTGTTTTAATAGTTTAAATAGCTTCAATTTATGATAGTAAACTTGCTT-GAATGATTGAACTTA
64 TTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT--TTCGAATGATTGAACTTA
* * ** * * ** * * * *
17635388 GTTTCCAGGGTTTATATGTGTGAAAAAGTTATGGTTTATATTTGTTTAGAACTTTTTATGCCGTT
127 ATTTTCACAGTTGATATGTATGAAAAAGTTACCGTTTATATCTATTTAAAACTTTTTATGTCGTT
* * * *
17635453 GAAAGGCAAAAATGCAAGTTTGCAATTATTGTTCTATTTTAACAGTTTAGATAGCTTCAATACAT
192 AAAAGGCAAAAATGCAAGTTTTCAATTATTGTTCTATTTTAACAATTTTGATAGCTTCAATACAT
* * * * *
17635518 GATATTAAACTTGTTCGAATGAATGAACTTAGTTTTCACGATTGATATGTGTGAAAAAGTTACCA
257 GATATTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGATTG--ATGTATGAAAAAGTTA-CA
* * * * *
17635583 TTTATTTCTATTTAGAACTTTTTATGT-CATTAAAAGGT-AAAAATGCAAGTT-TCCAGTTATTG
319 TTTATGTCTATTTAG-A-TTTTT-TGTGC-TTTAAAGATCAAAAATGTAA-TTATGCAGTTATTG
* * * ** * *
17635645 TTCTATTTTAACAA-TTTTGATAGCTTCAATACATTATATTAAACTTGTTTGAATTATTAAACTT
379 TTCTATTTTAA-AAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAACTT
* *
17635709 GG-TTTCAATGATTGAT-T-TGTG-AT-AA--TG-GTTTATG-TCTATTTCA-GACTTTTTATGC
443 GGTTTTCAATGATTGATATGTGTGAATAAAGTTGTGTTTATGTTC-GTTT-AGGACTTTTTGTGC
* * * * ** * * * *
17635764 CATTAAAGATCAAAATTGTAATTATGTTGTTATTGTTCTATTTTAAGAGTTTAGATAGCTTAAAT
506 CATTAAAG-GCAAAAATGCAATTTTGCAGTTATTATTTTATTTTAACAGTTTAGATAGCTTCAAT
* *** *
17635829 ACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTTCATGGTTTATATATGTGAAAAAAAG
570 ACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATGGTTTATATGTGTG-AAAAAA-
*
17635894 TTATGG
633 TTATCG
* * * ** *
17635900 TTTATGTTTGTTTAGGACTTTTTGTGCCATTAAAAGACAAAAATGCAAGTTTGTAGTTATTATTT
1 TTTATGTTTGTTTATGACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTACAGTTATTGTTT
* * * * * * *
17635965 TGTTTTAACAATTTATATAGCTTTAATACATGATATTAAACTTGTTCAAATAATTGAACTT-AGT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT-TTCGAATGATTGAACTTAATT
* ** * * * *
17636029 TTCACAGTTGATATGTATGAAATAGTTACTATTTATGTCTATTTAGAACCTTTTATATCGTTAAA
130 TTCACAGTTGATATGTATGAAAAAGTTACCGTTTATATCTATTTAAAACTTTTTATGTCGTTAAA
* * * * * * *
17636094 AGGCAAAAATGCAAGTTTCCAGTTATTATTTTA-TTTAATAATTTTGATAGCTTCGATACATTAT
195 AGGCAAAAATGCAAGTTTTCAATTATTGTTCTATTTTAACAATTTTGATAGCTTCAATACATGAT
* * * *
17636158 ATTAAAATTGTTTGAATGATTAAACTTGGTTTCCATGATTGATGTGTGAAAAAGTTACAATTTAT
260 ATTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGATTGATGTATGAAAAAGTTAC-ATTTAT
* * * * * * * * *
17636223 GTCTGTTTCAGACTTTTTATGCATTAAAGATCAAAATTGTAATTAAGTAGTTATTGTTTTGTTTT
324 GTCTATTT-AGATTTTTTGTGCTTTAAAGATCAAAAATGTAATTATGCAGTTATTGTTCTATTTT
* * * * *
17636288 AACAGTTTAAATAACTTAAATACATGATATTAAACTTCTCTGAATGATTTAACTTGGTTTTC-AT
388 AAAAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAACTTGGTTTTCAAT
* * * *
17636352 GGTTTATATGTATGAATAAAGTTGTGATTTATGTTCGTTTAGGACTTTTTGTGCTATTGAAAGGC
453 GATTGATATGTGTGAATAAAGTTGTG-TTTATGTTCGTTTAGGACTTTTTGTGCCATT-AAAGGC
* * * * *
17636417 AAAAATGCAAGTTTTGTAGTTATTATTTTGTTTTAACAATTTATATGGCTTCAATACATGATATT
516 AAAAATGCAA-TTTTGCAGTTATTATTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATT
* *
17636482 AAACTTGCCCAAATGATTGAACTTGGTTTACATGGTTTATATGTGTGAAAAAATTATCG
580 AAACTTGTCCAAATGATTGAACTTGGTTTTCATGGTTTATATGTGTGAAAAAATTATCG
* ** * *
17636541 TTTATGTTTGCTTATGACTTTTTATGCCATTGGAAGGCAAAAATGCAAGTTTACAATTATTGTTC
1 TTTATGTTTGTTTATGACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTACAGTTATTGTTT
* * *
17636606 TATTTTAATAGTTTAGATAGCCTCAATATATGATATTAAACTTATTCGAATGATTGAACTTAATT
66 TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT-TTCGAATGATTGAACTTAATT
* *
17636671 TTCACAGTTGATATGTGTGAAAAAGTTACCCTTTATATCTATTTAAAACTTTTTATGT-GTTAAA
130 TTCACAGTTGATATGTATGAAAAAGTTACCGTTTATATCTATTTAAAACTTTTTATGTCGTTAAA
* * * *
17636735 AGACAAAAATGCAACTTTTCAATTATTGTTCTATTTTAACAATTTTGATAGCTTTAATACATTAT
195 AGGCAAAAATGCAAGTTTTCAATTATTGTTCTATTTTAACAATTTTGATAGCTTCAATACATGAT
* * * * *
17636800 ATTAAATTTGTTTGAATGATTAAACTTGGTTTTCATAATTGATGCATGAAAAAGTTACGGTTTAT
260 ATTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGATTGATGTATGAAAAAGTTAC-ATTTAT
* * *
17636865 GTCTGTTTCAGATTTTTTGTGCCTTTAAAGATCAAAATTGTAATTATGTAGTTATTGTTCTATTT
324 GTCTATTT-AGATTTTTTGTG-CTTTAAAGATCAAAAATGTAATTATGCAGTTATTGTTCTATTT
* * * *
17636930 TAAAAGTTTAGATAGCTTAAATATATGATATTAAACTTATCCGAATGATTGAACTTGGTTTTCAT
387 TAAAAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAACTTGGTTTTCAA
* * * *
17636995 TG-TTTATATGTGTGAAAAAAGTTGTGGTTTATGTTTGTTTAGAACTTTTTGTGCCATTGAAAGG
452 TGATTGATATGTGTGAATAAAGTTGT-GTTTATGTTCGTTTAGGACTTTTTGTGCCATT-AAAGG
* * * * * * *
17637059 TAAAAATGCAAGTTTACAATTATTATTTTGTTTTAACAGTTTATATAGCTTCAATACATGGTATT
515 CAAAAATGCAATTTTGCAGTTATTATTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATT
* * ** * *
17637124 AAACTTGTCCAAATGATTGAACATGGTTTTCACGGTTTATATGAATGAAAAAGTTATCA
580 AAACTTGTCCAAATGATTGAACTTGGTTTTCATGGTTTATATGTGTGAAAAAATTATCG
* * **
17637183 TTTATGTTTGTTTATGACTTTTTATCCCGTTGAAAAGGCAAAAATGCAAGTTTGTAGTTATTGTT
1 TTTATGTTTGTTTATGACTTTTTATGCCATT-AAAAGGCAAAAATGCAAGTTTACAGTTATTGTT
* * * **
17637248 TTATTTTAACAGTTTAGATAACTTCAATACATGATATTACA-TTTGTCTGAATGATTAAACTTGG
65 TTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTT-TC-GAATGATTGAACTTAA
* * * * * *
17637312 TTTTCAC-GATTGATATGTATGAAAAAATAACCGTTTATGTCTGTTTAAAACTTTTTGTGTCATT
128 TTTTCACAG-TTGATATGTATGAAAAAGTTACCGTTTATATCTATTTAAAACTTTTTATGTCGTT
* * * * * *
17637376 AAAAGGCAAAAATGCAAATTTGT-AATTACTGTTCTATTTTAAGAGTTTGGATAAG-TTTAATAC
192 AAAAGGCAAAAATGCAAGTTT-TCAATTATTGTTCTATTTTAACAATTTTGAT-AGCTTCAATAC
* * * ** * * * *
17637439 ATGATATTAAACTTGTCCAAATGATTGATGTT-TTTTTCCATGGTTGATATATGTGAAAAAATTA
255 ATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTT-CATGATTGATGTA--TGAAAAAGTTA
* * * * * ** * *
17637503 TCGTTTATATCTATTTAGGATATTTTGTGTTGTTAAA-AGGCAAAAAAATAATTTTACAGTTATA
317 -CATTTATGTCTATTTA-GATTTTTTGTGCT-TTAAAGA-TCAAAAATGTAATTATGCAGTTAT-
* * *
17637567 T-TTCTGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAATT
377 TGTTCTATTTTAAAAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAACT
* * * ** *
17637631 TGGTTTCCAAT-ATTGATATGTGTTAA-AAAGTTGTTGTTTATGTTTGTTTAATACTTTTTGCGC
442 TGGTTTTCAATGATTGATATGTGTGAATAAAGTTG-TGTTTATGTTCGTTTAGGACTTTTTGTGC
* ** *
17637694 CATTAAAGGGTAAAAATATAATTTTGCAGTTA-TATTTTATATTTTAACAGTTTAGATAGCTTCG
506 CATTAAA-GGCAAAAATGCAATTTTGCAGTTATTA-TTT-TATTTTAACAGTTTAGATAGCTTCA
* * * * * * * ** *
17637758 ATATATTATATTAAACTTGTCTAAATGTTTGAACTT-ATTTGCCAT-GTTTGGTATGCATGAATA
568 ATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTT-TCATGGTTT-ATATGTGTGAAAA
*
17637821 AGTTA-CGG
631 AATTATC-G
** * * ** *
17637829 TTTATGTTTGTTTATGAC-TTTT-TGTAATGTCAAAAGGCAAAAAAGCAAATTTGTAGTTATTAT
1 TTTATGTTTGTTTATGACTTTTTATGCCAT-T-AAAAGGCAAAAATGCAAGTTTACAGTTATTGT
* * * * * *
17637892 TATATTTTAACAATTTAGATAAC-TCTAGTATATAATATTAAACTGTTTCGAATG-TTGGAACTT
64 TTTATTTTAACAGTTTAGATAGCTTC-AATACATGATATTAAACT-TTTCGAATGATT-GAACTT
17637955 AATT
126 AATT
17637959 GCTACGCTTA
Statistics
Matches: 1711, Mismatches: 294, Indels: 103
0.81 0.14 0.05
Matches are distributed among these distances:
633 11 0.01
634 81 0.05
635 34 0.02
636 5 0.00
637 62 0.04
638 83 0.05
639 85 0.05
640 17 0.01
641 147 0.09
642 326 0.19
643 381 0.22
644 101 0.06
645 151 0.09
646 223 0.13
647 4 0.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (638 bp):
TTTATGTTTGTTTATGACTTTTTATGCCATTAAAAGGCAAAAATGCAAGTTTACAGTTATTGTTT
TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTTTCGAATGATTGAACTTAATTT
TCACAGTTGATATGTATGAAAAAGTTACCGTTTATATCTATTTAAAACTTTTTATGTCGTTAAAA
GGCAAAAATGCAAGTTTTCAATTATTGTTCTATTTTAACAATTTTGATAGCTTCAATACATGATA
TTAAACTTGTTCGAATGATTAAACTTGGTTTTCATGATTGATGTATGAAAAAGTTACATTTATGT
CTATTTAGATTTTTTGTGCTTTAAAGATCAAAAATGTAATTATGCAGTTATTGTTCTATTTTAAA
AGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGATTTAACTTGGTTTTCAATGAT
TGATATGTGTGAATAAAGTTGTGTTTATGTTCGTTTAGGACTTTTTGTGCCATTAAAGGCAAAAA
TGCAATTTTGCAGTTATTATTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT
GTCCAAATGATTGAACTTGGTTTTCATGGTTTATATGTGTGAAAAAATTATCG
Found at i:17637017 original size:804 final size:792
Alignment explanation
Indices: 17635316--17637851 Score: 2460
Period size: 804 Copynumber: 3.2 Consensus size: 792
17635306 CAAATTTACT
* * * * *
17635316 GTTATTGTTTTGTTTTAATAGTTTAAATAGCTTCAATTTATGATAGTAAACTTG-CTTGAATGAT
1 GTTATTGTTTTATTTTAAAAGTTTAGATAGCTTCAATATATGATATTAAACTTGTC-TGAATGAT
* * *
17635380 TGAACTTAGTTTCCAGGGTTTATATGTGTGAAAAAGTTATGGTTTATATTTGTTTAGAACTTTTT
65 TGAACTTGGTTTCCA-TGTTTATATGTGTGAAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTT
* * * * * *
17635445 ATGCCGTTGAAAGGCAAAAATGCAAGTTTGCAATTATTGTTCTATTTTAACAGTTTAGATAGCTT
129 ATGCCATTGAAAGTCAAAAATGCAAGTTAGCAATTATTGTTTTGTTTTAACAGTTTAAATAGCTT
* * * * *
17635510 CAATACATGATATTAAACTTGT-TCGAATGAATGAACTTAGTTTTCACGATTGATATGTGTGAAA
194 CAATACATGATATTAAACTTGTCT-GAATGATTGAACTTGGTTTTCACGGTTTATATGTATGAAA
* * * * * **
17635574 AAGTTACCATTTAT-TTCTATTTAGAACTTTTTATG-TCATTAAAAGGTAAAAATGCAAGTTTCC
258 AAGTTATCATTTATGTTC-GTTTAGGACTTTTTATGCT-ATTGAAAGGCAAAAATGCAAGTTTGT
* * * *
17635637 AGTTATTGTTCTATTTTAACAATTT-TGATAGCTTCAATACATTATATTAAACTTGTTTGAATTA
321 AGTTATTGTTTTATTTTAACAATTTAT-ATAGCTTCAATACATGATATTAAACTTGTCTGAATGA
* *
17635701 TTAAACTTGGTTTCAATGATTGAT-T-TGTG-----ATAATGGTTTATGTCTATTTCAGACTTTT
385 TTAAACTTGGTTTC-ATGATTGATATGTGTGAAAAAATAATCGTTTATGTCTGTTT-AGACTTTT
* * * **
17635759 TATGCCATTAAAGATCAAAATTGTAATTATGTTGTTATTGTTCTATTTTAAGAGTTTAGATAGCT
448 TATGCCATTAAAG-GCAAAAATGCAATT-TGTAATTATTGTTCTATTTTAAGAGTTTAGATAGCT
* * ** *
17635824 TAAATACATGATATTAAACTTATTTGAATGATTGAACTTGGTTTTCATGGTTTATATATGTGAAA
511 TAAATACATGATATTAAACTTATTCGAATGATTGAACTT-ATTTTCACAGTTGATATATGTG--A
* * * * **
17635889 AAAAGTTATGGTTTATGTTTGTTTAGGACTTTTTGTGCCATTAAAAGACAAAAATGCAAGTTTGT
573 AAAAGTTATCGTTTATATCTATTTAGGACTTTTTGTGCTGTTAAAAGACAAAAATGCAA-TTT-T
* * *
17635954 -AGTTATTATTTTGTTTTAACAATTTAT-ATAGCTTTAATACATGATATTAAACTTGTTCAAATA
636 CAGTTATT-TTCTGTTTTAACAATTT-TGATAGCTTTAATACATGATATTAAACTTGTTCGAATG
* * * * * *
17636017 ATTGAACTTAG-TTTCACAGTTGATATGTATGAAATAGTTACTATTTATGTCTATTTAGAACCTT
699 ATTAAACTTGGTTTTCA-AATTGA-ATGTATGAAAAAGTTACTGTTTATGTCTGTTTAG-A--TT
* * * * * * *
17636081 TTATAT-CGTTAAAAGGCAAAAATGCAAGTTTCCA
759 TTTTGTGCCTTTAAAGTCAAAAATGTAA-TTTGCA
* * * * * * *
17636115 GTTATTATTTTA-TTTAATAA-TTTTGATAGCTTCGATACATTATATTAAAATTGTTTGAATGAT
1 GTTATTGTTTTATTTTAA-AAGTTTAGATAGCTTCAATATATGATATTAAACTTGTCTGAATGAT
* * * *** *
17636178 TAAACTTGGTTTCCATGATT-GATGTGTGAAAAAGTTACAATTTATGTCTGTTTCAG-ACTTTTT
65 TGAACTTGGTTTCCATGTTTATATGTGTGAAAAAGTTATGGTTTATGTTTGTTT-AGAACTTTTT
* * * * *
17636241 ATG-CATT-AAAGATCAAAATTGTAA-TTAAGTAGTTATTGTTTTGTTTTAACAGTTTAAATAAC
129 ATGCCATTGAAAG-TCAAAAATGCAAGTT-AGCAATTATTGTTTTGTTTTAACAGTTTAAATAGC
* * * *
17636303 TTAAATACATGATATTAAACTTCTCTGAATGATTTAACTTGGTTTTCATGGTTTATATGTATGAA
192 TTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGGTTTATATGTATGAA
* * *
17636368 TAAAGTTGTGATTTATGTTCGTTTAGGACTTTTTGTGCTATTGAAAGGCAAAAATGCAAGTTTTG
257 -AAAGTTATCATTTATGTTCGTTTAGGACTTTTTATGCTATTGAAAGGCAAAAATGCAAG-TTTG
* * * * **
17636433 TAGTTATTATTTTGTTTTAACAATTTATATGGCTTCAATACATGATATTAAACTTGCCCAAATGA
320 TAGTTATTGTTTTATTTTAACAATTTATATAGCTTCAATACATGATATTAAACTTGTCTGAATGA
* * * * * *
17636498 TTGAACTTGGTTTACATGGTTTATATGTGTGAAAAAATTATCGTTTATGTTTGCTTATGACTTTT
385 TTAAACTTGGTTT-CATGATTGATATGTGTGAAAAAATAATCGTTTATGTCTGTTTA-GACTTTT
* ** * *
17636563 TATGCCATTGGAAGGCAAAAATGCAAGTTTACAATTATTGTTCTATTTTAATAGTTTAGATAGCC
448 TATGCCATT-AAAGGCAAAAATGCAA-TTTGTAATTATTGTTCTATTTTAAGAGTTTAGATAGCT
* * *
17636628 TCAATATATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTGAAA
511 TAAATACATGATATTAAACTTATTCGAATGATTGAACTT-ATTTTCACAGTTGATATATGTGAAA
* * ** * *
17636693 AAGTTACCCTTTATATCTATTTAAAACTTTTTATG-TGTTAAAAGACAAAAATGCAACTTTTCAA
575 AAGTTATCGTTTATATCTATTTAGGACTTTTTGTGCTGTTAAAAGACAAAAATGCAA-TTTTCAG
* * * *
17636757 TTATTGTTCTATTTTAACAATTTTGATAGCTTTAATACATTATATTAAATTTGTTTGAATGATTA
639 TTATT-TTCTGTTTTAACAATTTTGATAGCTTTAATACATGATATTAAACTTGTTCGAATGATTA
* *
17636822 AACTTGGTTTTCATAATTG-ATGCATGAAAAAGTTACGGTTTATGTCTGTTTCAGATTTTTTGTG
703 AACTTGGTTTTCA-AATTGAATGTATGAAAAAGTTACTGTTTATGTCTGTTT-AGATTTTTTGTG
* *
17636886 CCTTTAAAGATCAAAATTGTAATTATGTA
766 CCTTTAAAG-TCAAAAATGTAATT-TGCA
* * * *
17636915 GTTATTGTTCTATTTTAAAAGTTTAGATAGCTTAAATATATGATATTAAACTTATCCGAATGATT
1 GTTATTGTTTTATTTTAAAAGTTTAGATAGCTTCAATATATGATATTAAACTTGTCTGAATGATT
* *
17636980 GAACTTGGTTTTCATTGTTTATATGTGTGAAAAAAGTTGTGGTTTATGTTTGTTTAGAACTTTTT
66 GAACTTGGTTTCCA-TGTTTATATGTGTG-AAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTT
* * *
17637045 GTGCCATTGAAAGGT-AAAAATGCAAGTTTA-CAATTATTATTTTGTTTTAACAGTTTATATAGC
129 ATGCCATTGAAA-GTCAAAAATGCAAG-TTAGCAATTATTGTTTTGTTTTAACAGTTTAAATAGC
* ** * *
17637108 TTCAATACATGGTATTAAACTTGTCCAAATGATTGAACATGGTTTTCACGGTTTATATGAATGAA
192 TTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGGTTTATATGTATGAA
* * * **
17637173 AAAGTTATCATTTATGTTTGTTTATGACTTTTTATCCCGTTGAAAAGGCAAAAATGCAAGTTTGT
257 AAAGTTATCATTTATGTTCGTTTAGGACTTTTTATGCTATTG-AAAGGCAAAAATGCAAGTTTGT
* * * * *
17637238 AGTTATTGTTTTATTTTAACAGTTTAGATAACTTCAATACATGATATTACATTTGTCTGAATGAT
321 AGTTATTGTTTTATTTTAACAATTTATATAGCTTCAATACATGATATTAAACTTGTCTGAATGAT
* * * *
17637303 TAAACTTGGTTTTCACGATTGATATGTATGAAAAAATAACCGTTTATGTCTGTTTAAAACTTTTT
386 TAAACTTGG-TTTCATGATTGATATGTGTGAAAAAATAATCGTTTATGTCTGTTT-AGACTTTTT
* * * *
17637368 GTGTCATTAAAAGGCAAAAATGCAAATTTGTAATTACTGTTCTATTTTAAGAGTTTGGATAAG-T
449 ATGCCATT-AAAGGCAAAAATGC-AATTTGTAATTATTGTTCTATTTTAAGAGTTTAGAT-AGCT
* * * * ** *
17637432 TTAATACATGATATTAAACTTGTCCAAATGATTGATGTTTTTTTC-CATGGTTGATATATGTGAA
511 TAAATACATGATATTAAACTTATTCGAATGATTGAACTTATTTTCACA--GTTGATATATGTGAA
* * * ***
17637496 AAAATTATCGTTTATATCTATTTAGGA-TATTTTGTGTTGTTAAAAGGCAAAAAAATAATTTTAC
574 AAAGTTATCGTTTATATCTATTTAGGACT-TTTTGTGCTGTTAAAAGACAAAAATGCAATTTT-C
* * * * *
17637560 AGTTATATTTCTGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAACTTGTCCGAATGAT
637 AGTTAT-TTTCTGTTTTAACAATTTTGATAGCTTTAATACATGATATTAAACTTGTTCGAATGAT
* * * * * ** *
17637625 TTAATTTGGTTTCCAATATTGATATGTGTTAAAAAGTTGTTGTTTATGTTTGTTTA-ATACTTTT
701 TAAACTTGGTTTTCAA-ATTGA-ATGTATGAAAAAGTTACTGTTTATGTCTGTTTAGAT--TTTT
* * *
17637689 TGCGCCATTAAAGGGT-AAAAATATAATTTTGCA
762 TGTGCCTTTAAA--GTCAAAAATGTAA-TTTGCA
* * * * *
17637722 GTTATAT-TTTATATTTTAACAGTTTAGATAGCTTCGATATATTATATTAAACTTGTCTAAATGT
1 GTTAT-TGTTT-TATTTTAAAAGTTTAGATAGCTTCAATATATGATATTAAACTTGTCTGAATGA
* * ** * *
17637786 TTGAACTT-ATTTGCCATGTTTGGTATGCATGAATAAGTTACGGTTTATGTTTGTTTATG-ACTT
64 TTGAACTTGGTTT-CCATGTTT-ATATGTGTGAAAAAGTTATGGTTTATGTTTGTTTA-GAACTT
17637849 TTT
126 TTT
17637852 GTAATGTCAA
Statistics
Matches: 1408, Mismatches: 265, Indels: 120
0.79 0.15 0.07
Matches are distributed among these distances:
794 6 0.00
795 94 0.07
796 83 0.06
797 83 0.06
798 60 0.04
799 24 0.02
800 53 0.04
801 137 0.10
802 44 0.03
803 16 0.01
804 421 0.30
805 215 0.15
806 7 0.00
807 98 0.07
808 66 0.05
809 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (792 bp):
GTTATTGTTTTATTTTAAAAGTTTAGATAGCTTCAATATATGATATTAAACTTGTCTGAATGATT
GAACTTGGTTTCCATGTTTATATGTGTGAAAAAGTTATGGTTTATGTTTGTTTAGAACTTTTTAT
GCCATTGAAAGTCAAAAATGCAAGTTAGCAATTATTGTTTTGTTTTAACAGTTTAAATAGCTTCA
ATACATGATATTAAACTTGTCTGAATGATTGAACTTGGTTTTCACGGTTTATATGTATGAAAAAG
TTATCATTTATGTTCGTTTAGGACTTTTTATGCTATTGAAAGGCAAAAATGCAAGTTTGTAGTTA
TTGTTTTATTTTAACAATTTATATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTAAAC
TTGGTTTCATGATTGATATGTGTGAAAAAATAATCGTTTATGTCTGTTTAGACTTTTTATGCCAT
TAAAGGCAAAAATGCAATTTGTAATTATTGTTCTATTTTAAGAGTTTAGATAGCTTAAATACATG
ATATTAAACTTATTCGAATGATTGAACTTATTTTCACAGTTGATATATGTGAAAAAGTTATCGTT
TATATCTATTTAGGACTTTTTGTGCTGTTAAAAGACAAAAATGCAATTTTCAGTTATTTTCTGTT
TTAACAATTTTGATAGCTTTAATACATGATATTAAACTTGTTCGAATGATTAAACTTGGTTTTCA
AATTGAATGTATGAAAAAGTTACTGTTTATGTCTGTTTAGATTTTTTGTGCCTTTAAAGTCAAAA
ATGTAATTTGCA
Found at i:17639077 original size:34 final size:34
Alignment explanation
Indices: 17639039--17639113 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
17639029 CATTTTAAAA
**
17639039 TACAAACACCACTAAATTTAGTGGCATTTTTGCT
1 TACAAACACCACTAAATTTAGTAACATTTTTGCT
* ** * *
17639073 TACAAATACTGCTAAATTTCGTAACGTTTTTGCT
1 TACAAACACCACTAAATTTAGTAACATTTTTGCT
17639107 TACAAAC
1 TACAAAC
17639114 GCTGCTACGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (34 bp):
TACAAACACCACTAAATTTAGTAACATTTTTGCT
Found at i:17639967 original size:31 final size:33
Alignment explanation
Indices: 17639910--17639978 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
17639900 AGAGTAGAGA
*
17639910 TTTTTATTATTTGGATTAGTCATG-AAAAATAT
1 TTTTTATTATTTGGATTAGTCATGAAAAAAAAT
* **
17639942 TTTTTATTATTT-GATTATTTTTGAAAAAAAAT
1 TTTTTATTATTTGGATTAGTCATGAAAAAAAAT
17639974 TTTTT
1 TTTTT
17639979 TTCAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (33 bp):
TTTTTATTATTTGGATTAGTCATGAAAAAAAAT
Found at i:17640478 original size:39 final size:40
Alignment explanation
Indices: 17640425--17640525 Score: 97
Period size: 42 Copynumber: 2.5 Consensus size: 40
17640415 AATGATTAAA
*
17640425 AATA-TTATTA-TAAAACAATAATATTATTAT-C-TT-TAAT
1 AATATTTATTATTAAAA-AATAA-AATATTATGCATTATAAT
*
17640462 AAT-TTTAATTATTAAAATAATGAAAATATTATGCATTATATT
1 AATATTT-ATTATTAAAA-AAT-AAAATATTATGCATTATAAT
17640504 AATATTTATTATTAAAAAATAA
1 AATATTTATTATTAAAAAATAA
17640526 CATAATACTA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
37 5 0.09
38 4 0.08
39 15 0.28
40 5 0.09
41 5 0.09
42 16 0.30
43 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (40 bp):
AATATTTATTATTAAAAAATAAAATATTATGCATTATAAT
Found at i:17642346 original size:17 final size:18
Alignment explanation
Indices: 17642324--17642362 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17642314 TTTAACTATT
17642324 ATTTTA-TA-ATTTTTATA
1 ATTTTATTATATTTTTA-A
17642341 ATTTTATTATATTTTTAA
1 ATTTTATTATATTTTTAA
17642359 ATTT
1 ATTT
17642363 ATTTTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 7 0.35
19 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATTATATTTTTAA
Found at i:17642365 original size:17 final size:20
Alignment explanation
Indices: 17642327--17642362 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
17642317 AACTATTATT
17642327 TTATAATTTTTATAATTTTA
1 TTATAATTTTTATAATTTTA
17642347 TTAT-ATTTTTA-AATTT
1 TTATAATTTTTATAATTT
17642363 ATTTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATAATTTTTATAATTTTA
Found at i:17643836 original size:26 final size:25
Alignment explanation
Indices: 17643807--17643864 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
17643797 TAACTATTTG
17643807 AAAATTACTTATTATTAAAATATATT
1 AAAATTACTTATTATTAAAAT-TATT
* *
17643833 AAAATTATTTATTATTGAAATTATT
1 AAAATTACTTATTATTAAAATTATT
*
17643858 AATATTA
1 AAAATTA
17643865 AAAAGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
AAAATTACTTATTATTAAAATTATT
Found at i:17643848 original size:16 final size:15
Alignment explanation
Indices: 17643828--17643867 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17643818 TTATTAAAAT
17643828 ATATTAAAATTATTTA
1 ATATTAAAATTA-TTA
* *
17643844 TTATTGAAATTATTA
1 ATATTAAAATTATTA
17643859 ATATTAAAA
1 ATATTAAAA
17643868 AGTAATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:17643903 original size:19 final size:19
Alignment explanation
Indices: 17643881--17643923 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17643871 AATTATATTT
*
17643881 TTAATAATAATAT-TTAATA
1 TTAA-AATAATATAGTAATA
*
17643900 TTAAAATATTATAGTAATA
1 TTAAAATAATATAGTAATA
17643919 TTAAA
1 TTAAA
17643924 CTTTTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAAAATAATATAGTAATA
Found at i:17644416 original size:30 final size:30
Alignment explanation
Indices: 17644358--17644417 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17644348 ATTGAAATAT
* **
17644358 TAAAAATATTTATATTTAATAATATAAAAA
1 TAAAAATATTTAAAAGTAATAATATAAAAA
17644388 TAAAAATATTTAAAAGTAA-AATATTAAAAA
1 TAAAAATATTTAAAAGTAATAATA-TAAAAA
17644418 ACTTTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
TAAAAATATTTAAAAGTAATAATATAAAAA
Found at i:17646458 original size:30 final size:32
Alignment explanation
Indices: 17646407--17646468 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
17646397 ATATTTTTAA
17646407 ATCATATTTAATTATTATTTTATAA-TTATTTT
1 ATCATATTTAATTATTATTTTA-AATTTATTTT
17646439 ATCAT-TTT-ATTA-TATTTTTAAATTTATTTT
1 ATCATATTTAATTATTA-TTTTAAATTTATTTT
17646469 TAAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 4 0.14
30 16 0.57
31 3 0.11
32 5 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (32 bp):
ATCATATTTAATTATTATTTTAAATTTATTTT
Found at i:17648395 original size:59 final size:58
Alignment explanation
Indices: 17648273--17648415 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 58
17648263 AATATAGAAT
* * *
17648273 CAAAACCTAAACAAATTTTAACAAATATAAACCAACAAAAACTCAACAAATTGGTAAC
1 CAAAACCCAAACAAATTTAAACAAATAAAAACCAACAAAAACTCAACAAATTGGTAAC
* * * * * * * *
17648331 AAAAACCCAAATAAATTTAAACAAGTAAATAACTAATAAAAACTTAATATATTGGTAAC
1 CAAAACCCAAACAAATTTAAACAAATAAA-AACCAACAAAAACTCAACAAATTGGTAAC
* *
17648390 CAAAACTCAAACAAATTTCAACAAAT
1 CAAAACCCAAACAAATTTAAACAAAT
17648416 TTATAACAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
58 23 0.34
59 45 0.66
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (58 bp):
CAAAACCCAAACAAATTTAAACAAATAAAAACCAACAAAAACTCAACAAATTGGTAAC
Found at i:17648422 original size:59 final size:56
Alignment explanation
Indices: 17648273--17648434 Score: 155
Period size: 59 Copynumber: 2.8 Consensus size: 56
17648263 AATATAGAAT
* *
17648273 CAAAACCTAAACAAATTTTAACAAATATA-AACCAACAAAAACTCAACAAATTGGTAAC
1 CAAAACC-AAACAAATTTAAACAAATATATAA-CAA-AAAAACTTAACAAATTGGTAAC
* * * * * *
17648331 AAAAACCCAAATAAATTTAAACAAGTAAATAACTAATAAAAACTTAATATATTGGTAAC
1 CAAAA-CCAAACAAATTTAAACAAATATATAAC-AA-AAAAACTTAACAAATTGGTAAC
* * *
17648390 CAAAACTCAAACAAATTTCAACAAATTTATAACAAAAAAAATTAA
1 CAAAAC-CAAACAAATTTAAACAAATATATAACAAAAAAACTTAA
17648435 AACCTAAACT
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
57 9 0.11
58 25 0.30
59 50 0.60
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (56 bp):
CAAAACCAAACAAATTTAAACAAATATATAACAAAAAAACTTAACAAATTGGTAAC
Found at i:17649801 original size:22 final size:22
Alignment explanation
Indices: 17649771--17649816 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17649761 AAAAAAAGAG
17649771 TTTGATTTTCTTTTATTATTATT
1 TTTGATTTTCTTTTATT-TTATT
*
17649794 TTTG-TTTTGTTTTATTTTATT
1 TTTGATTTTCTTTTATTTTATT
17649815 TT
1 TT
17649817 ATAATACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTGATTTTCTTTTATTTTATT
Found at i:17650553 original size:20 final size:20
Alignment explanation
Indices: 17650515--17650553 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17650505 ATAGATCAAA
*
17650515 TTATATATTTTATTATTTTT
1 TTATATATTTTAATATTTTT
17650535 TTATATATTTTAA-ATTTTT
1 TTATATATTTTAATATTTTT
17650554 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATATTTTAATATTTTT
Found at i:17650617 original size:13 final size:11
Alignment explanation
Indices: 17650589--17650628 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17650579 AAATTTATAT
*
17650589 AAATATATTAA
1 AAATATATAAA
17650600 AAATATATCAAA
1 AAATATAT-AAA
17650612 ATAATATATAAA
1 A-AATATATAAA
17650624 AAATA
1 AAATA
17650629 AATTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 12 0.46
12 7 0.27
13 7 0.27
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATATATAAA
Found at i:17650702 original size:22 final size:23
Alignment explanation
Indices: 17650677--17650720 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
17650667 TTAGATTCGA
17650677 TTTAAA-TTATATAAAAGTTTAG
1 TTTAAATTTATATAAAAGTTTAG
* *
17650699 TTTAAATTTATATCAAATTTTA
1 TTTAAATTTATATAAAAGTTTA
17650721 AAAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTAAATTTATATAAAAGTTTAG
Found at i:17659585 original size:2 final size:2
Alignment explanation
Indices: 17659575--17659619 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
17659565 GTGTGTTGAT
* *
17659575 TA TA GA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17659617 TA T
1 TA T
17659620 TTGCGGTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17660489 original size:2 final size:2
Alignment explanation
Indices: 17660482--17660517 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17660472 TTATTTAAAT
17660482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17660518 CATTGATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17665046 original size:23 final size:23
Alignment explanation
Indices: 17665020--17665063 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17665010 TTTTTTATCC
**
17665020 TTAATTCTAGGGATACAAATACT
1 TTAATTCTAAAGATACAAATACT
17665043 TTAATTCTAAAGATACAAATA
1 TTAATTCTAAAGATACAAATA
17665064 TAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (23 bp):
TTAATTCTAAAGATACAAATACT
Found at i:17668796 original size:38 final size:40
Alignment explanation
Indices: 17668734--17668816 Score: 143
Period size: 38 Copynumber: 2.1 Consensus size: 40
17668724 AATCTTAATA
17668734 CTAATTACTTATATATATATATATTATAAGATTATTGAAT
1 CTAATTACTTATATATATATATATTATAAGATTATTGAAT
17668774 CTAATTA-TT-TATATATATATATTATAAGATTATTGAAT
1 CTAATTACTTATATATATATATATTATAAGATTATTGAAT
*
17668812 TTAAT
1 CTAAT
17668817 AATTAAAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 33 0.79
39 2 0.05
40 7 0.17
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (40 bp):
CTAATTACTTATATATATATATATTATAAGATTATTGAAT
Found at i:17668849 original size:19 final size:19
Alignment explanation
Indices: 17668825--17668876 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
17668815 ATAATTAAAA
17668825 TGAATAAATATAATATTAT
1 TGAATAAATATAATATTAT
*
17668844 TTAAT-AAT-TAA-A--A-
1 TGAATAAATATAATATTAT
17668857 TGAATAAATATAATATTAT
1 TGAATAAATATAATATTAT
17668876 T
1 T
17668877 ATTTTATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
13 4 0.16
14 4 0.16
15 3 0.12
16 2 0.08
17 3 0.12
18 4 0.16
19 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TGAATAAATATAATATTAT
Found at i:17668890 original size:35 final size:32
Alignment explanation
Indices: 17668810--17668876 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
17668800 AGATTATTGA
17668810 ATTTAATAATTAAAATGAATAAATATAATATT
1 ATTTAATAATTAAAATGAATAAATATAATATT
17668842 ATTTAATAATTAAAATGAATAAATATAATATT
1 ATTTAATAATTAAAATGAATAAATATAATATT
17668874 ATT
1 ATT
17668877 ATTTTATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (32 bp):
ATTTAATAATTAAAATGAATAAATATAATATT
Found at i:17669098 original size:6 final size:6
Alignment explanation
Indices: 17669087--17669134 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
17669077 AATTTAGATC
* *
17669087 AATTTA AATTTA AA--TA AATTCA ATTTTA AA-TTA AA-TTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
17669131 AATT
1 AATT
17669135 ATTAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 10 0.29
6 21 0.60
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:17669109 original size:21 final size:22
Alignment explanation
Indices: 17669055--17669128 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
17669045 AATTTGAATC
* *
17669055 AATTCAAATTCAA-ATTAAATCA
1 AATT-AAATTCAATTTTAAATTA
*
17669077 AATTTAGA-TCAA-TTTAAATTTA
1 AA-TTAAATTCAATTTTAAA-TTA
17669099 AA-TAAATTCAATTTTAAATTA
1 AATTAAATTCAATTTTAAATTA
17669120 AATTAAATT
1 AATTAAATT
17669129 TAAATTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 18 0.42
22 20 0.47
23 2 0.05
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (22 bp):
AATTAAATTCAATTTTAAATTA
Found at i:17669114 original size:16 final size:16
Alignment explanation
Indices: 17669039--17669133 Score: 86
Period size: 16 Copynumber: 5.9 Consensus size: 16
17669029 GTTTCGAATT
* * *
17669039 AATTCGAATTTGAATC
1 AATTCAAATTTAAATA
*
17669055 AATTCAAATTCAAATTA
1 AATTCAAATTTAAA-TA
* *
17669072 AA-TCAAATTTAGATC
1 AATTCAAATTTAAATA
*
17669087 AATTTAAATTTAAATA
1 AATTCAAATTTAAATA
*
17669103 AATTCAATTTTAAATTA
1 AATTCAAATTTAAA-TA
17669120 AATT-AAATTTAAAT
1 AATTCAAATTTAAAT
17669134 TATTAATTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
15 4 0.06
16 50 0.79
17 9 0.14
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (16 bp):
AATTCAAATTTAAATA
Found at i:17673659 original size:41 final size:42
Alignment explanation
Indices: 17673614--17673692 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
17673604 TCGTTCGGAA
17673614 GATATATAAAG-ACATTAACAATTTAA-GAAATCAAAATCTAC
1 GATATATAAAGAACA-TAACAATTTAATGAAATCAAAATCTAC
* * *
17673655 GATATATAAAGAACATATCGATTTAATTAAATCAAAAT
1 GATATATAAAGAACATAACAATTTAATGAAATCAAAAT
17673693 ATAATGTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (42 bp):
GATATATAAAGAACATAACAATTTAATGAAATCAAAATCTAC
Found at i:17678566 original size:3 final size:3
Alignment explanation
Indices: 17678560--17678603 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
17678550 GAAGAAGAAA
* * *
17678560 ATG ATG ATG ATG ATG ATG ACG ATG ATA ATG ATA ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
17678604 AAAACACATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:17678735 original size:28 final size:28
Alignment explanation
Indices: 17678695--17678753 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
17678685 ATGTTCATAA
17678695 TATATCTCAAGTAAATATAATACTTTAT
1 TATATCTCAAGTAAATATAATACTTTAT
*
17678723 TATATCTTAAGTAAATATAATACTTTAT
1 TATATCTCAAGTAAATATAATACTTTAT
17678751 TAT
1 TAT
17678754 TTGTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (28 bp):
TATATCTCAAGTAAATATAATACTTTAT
Found at i:17682689 original size:2 final size:2
Alignment explanation
Indices: 17682682--17682711 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17682672 TTTCTTTTGG
*
17682682 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17682712 GTTTGTTCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17683084 original size:4 final size:4
Alignment explanation
Indices: 17683075--17683153 Score: 68
Period size: 4 Copynumber: 19.8 Consensus size: 4
17683065 TGATCACCTC
* ** * * * *
17683075 ATAT ATAT ATAT ATAT ATAT ATAC ATAT GCAT ACAT ACAT ACAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
17683123 ACAT ATAT ATAT ATAT ATAT GTAA ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
17683154 GACGCACACA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 65 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:17683393 original size:2 final size:2
Alignment explanation
Indices: 17683388--17683417 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17683378 ATCTAGAACC
*
17683388 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17683418 GATACAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17683940 original size:2 final size:2
Alignment explanation
Indices: 17683935--17683970 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17683925 CTTAATATTG
*
17683935 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17683971 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:17683975 original size:2 final size:2
Alignment explanation
Indices: 17683970--17683994 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17683960 ACACACACAC
17683970 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17683995 AGAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17684573 original size:36 final size:35
Alignment explanation
Indices: 17684500--17684577 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
17684490 CTTTAATACT
* *
17684500 TTTATTTTTTGAAACCAAAGTTTATAATTTTATAA
1 TTTATTTTTTCAAACCAAAGTTTATAATTTTACAA
*
17684535 TTTATTTTTTCAAACTAAAGTTTATAAGTATTT-CAA
1 TTTATTTTTTCAAACCAAAGTTTATAA-T-TTTACAA
17684571 TTT-TTTT
1 TTTATTTT
17684578 AAGAAAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 29 0.76
36 6 0.16
37 3 0.08
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.55
Consensus pattern (35 bp):
TTTATTTTTTCAAACCAAAGTTTATAATTTTACAA
Found at i:17684782 original size:24 final size:22
Alignment explanation
Indices: 17684722--17684793 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
17684712 GTATTATGAA
*
17684722 AATTTTATGATATTATTT-TTT
1 AATTTTAAGATATTATTTATTT
17684743 ATATTTTTAA-AT-TTATTTATTT
1 A-A-TTTTAAGATATTATTTATTT
*
17684765 GAATTTTGAAGATATTATATATTT
1 -AATTTT-AAGATATTATTTATTT
17684789 -ATTTT
1 AATTTT
17684794 GTAAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
21 11 0.26
22 14 0.33
23 8 0.19
24 9 0.21
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (22 bp):
AATTTTAAGATATTATTTATTT
Found at i:17685618 original size:3 final size:3
Alignment explanation
Indices: 17685612--17685639 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17685602 GCTTAAGGAG
17685612 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
17685640 TGGTGCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17686852 original size:18 final size:18
Alignment explanation
Indices: 17686829--17686868 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17686819 AAGCTAATGT
*
17686829 TTAAATCA-ATGTAATTGA
1 TTAAATCATAT-TAATTAA
17686847 TTAAATCATATTAATTAA
1 TTAAATCATATTAATTAA
17686865 TTAA
1 TTAA
17686869 TTAAGCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAAATCATATTAATTAA
Found at i:17687829 original size:12 final size:12
Alignment explanation
Indices: 17687812--17687932 Score: 65
Period size: 12 Copynumber: 10.0 Consensus size: 12
17687802 TTTATCATTA
17687812 TTTTATATTTAT
1 TTTTATATTTAT
*
17687824 TTTTATATATAT
1 TTTTATATTTAT
17687836 TTTTA-A-TTA-
1 TTTTATATTTAT
*
17687845 TTTTGTATTTAT
1 TTTTATATTTAT
17687857 TCTTTAT-TTTAT
1 T-TTTATATTTAT
* *
17687869 TCATTTATCTTTAC
1 T--TTTATATTTAT
* **
17687883 TCTTATCCTTAT
1 TTTTATATTTAT
17687895 TTTTAT-TTTACT
1 TTTTATATTTA-T
17687907 TCATTTAT-TTTAT
1 T--TTTATATTTAT
*
17687920 TATTATTATTTAT
1 TTTTA-TATTTAT
17687933 CTTAAAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
9 4 0.05
10 3 0.03
11 10 0.12
12 39 0.45
13 16 0.19
14 14 0.16
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (12 bp):
TTTTATATTTAT
Found at i:17687837 original size:33 final size:34
Alignment explanation
Indices: 17687800--17687863 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
17687790 TTGATAAGTG
*
17687800 TATTTATCATTATTTTATATTTATT-TTTATATA
1 TATTTATAATTATTTTATATTTATTCTTTATATA
* *
17687833 TATTTTTAATTATTTTGTATTTATTCTTTAT
1 TATTTATAATTATTTTATATTTATTCTTTAT
17687864 TTTATTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (34 bp):
TATTTATAATTATTTTATATTTATTCTTTATATA
Found at i:17687862 original size:22 final size:22
Alignment explanation
Indices: 17687802--17687848 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17687792 GATAAGTGTA
*
17687802 TTTATCAT-TATTTTATATTTATT
1 TTTAT-ATATATTTT-TAATTATT
17687825 TTTATATATATTTTTAATTATT
1 TTTATATATATTTTTAATTATT
17687847 TT
1 TT
17687849 GTATTTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTATATATATTTTTAATTATT
Found at i:17688916 original size:25 final size:25
Alignment explanation
Indices: 17688881--17688948 Score: 100
Period size: 26 Copynumber: 2.7 Consensus size: 25
17688871 ATTCTCTGAA
* *
17688881 GATAAAATTTTTAAAAATTATAAAT
1 GATAAATTTTTTAAAAATTACAAAT
*
17688906 GATAAATTTTTTTAGAAATTACAAAT
1 GATAAA-TTTTTTAAAAATTACAAAT
17688932 GATAAATTTTTTAAAAA
1 GATAAATTTTTTAAAAA
17688949 AATTTTTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 16 0.42
26 22 0.58
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (25 bp):
GATAAATTTTTTAAAAATTACAAAT
Found at i:17690621 original size:157 final size:157
Alignment explanation
Indices: 17690401--17690835 Score: 462
Period size: 154 Copynumber: 2.8 Consensus size: 157
17690391 ATCAGTTCAC
* * * *
17690401 TAAAGAATTTCTTACAAAA-TTAAGTTTTTAATTACTATAAAAGTAGTTCATCAACAAGCACAAT
1 TAAAAAATTTCTTACAAAATTTAGGCTTTAAATTACTATAAAAGTAGTTCATCAACAAGCACAAT
* *
17690465 GCACAATAAGAATCACAAACCAAAATACACAATAATTTTCACTTTTCACTAAGTCATTGTATCTT
66 GCACAATAAGAAT-ACAAACAAAAATACACAATAATTTTCACTTTTCACTAAGTCATTGCATC--
17690530 GATA-TACA-T-AATACACTATCTA-GTTAA
128 GA-AGTACACTCAATACACTATCTATGTTAA
* * *
17690557 TAAAAAATTT-TCTACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTTCATCAACAAGTACAA
1 TAAAAAATTTCT-TACAAAATTTAGGCTTTAAATTACTATAAAAGTAGTTCATCAACAAGCACAA
* *
17690621 TACACAAT-A-AA-A-AAACATAAAATACACAACAATTTTCATCTTTT-A-TAAAGTCATTGCAT
65 TGCACAATAAGAATACAAACA-AAAATACACAATAATTTTCA-CTTTTCACT-AAGTCATTGCAT
* *
17690680 CGAAGTACACTCAATATACTATCTATTTTAA
127 CGAAGTACACTCAATACACTATCTATGTTAA
* * * * * * *
17690711 TATAGAATTTCTTACAAAATTTATGCTTTAAATTGCCATAAAAGTAGTTTATCAACAAGCATAAT
1 TAAAAAATTTCTTACAAAATTTAGGCTTTAAATTACTATAAAAGTAGTTCATCAACAAGCACAAT
* * * ** * *
17690776 GCATAACAAGAATTACAAAGAAAAATACGTAATAGTTTTCACTTTTCACAAAGTCATTGC
66 GCACAATAAGAA-TACAAACAAAAATACACAATAATTTTCACTTTTCACTAAGTCATTGC
17690836 TTCTCAATAC
Statistics
Matches: 231, Mismatches: 31, Indels: 32
0.79 0.11 0.11
Matches are distributed among these distances:
150 1 0.00
151 6 0.03
152 6 0.03
153 45 0.19
154 66 0.29
155 5 0.02
156 18 0.08
157 52 0.23
158 28 0.12
159 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (157 bp):
TAAAAAATTTCTTACAAAATTTAGGCTTTAAATTACTATAAAAGTAGTTCATCAACAAGCACAAT
GCACAATAAGAATACAAACAAAAATACACAATAATTTTCACTTTTCACTAAGTCATTGCATCGAA
GTACACTCAATACACTATCTATGTTAA
Found at i:17690765 original size:154 final size:155
Alignment explanation
Indices: 17690386--17690873 Score: 442
Period size: 154 Copynumber: 3.1 Consensus size: 155
17690376 TACGTACAAA
* * *
17690386 ACACTATC-AGTTCACTAAAGAATTTCTTACAAAA-TTAAGTTTTTAATTACTATAAAAGTAGTT
1 ACACTATCTAGTT-AATAAAGAATTTCTTACAAAATTTAAGCTTTAAATTACTATAAAAGTAGTT
* *
17690449 CATCAACAAGCACAATGCACAATAAGAATCACAAACCAAAATACACAATAATTTTCACTTTTCAC
65 CATCAACAAGCACAATACACAATAAGAA-CACAAACCAAAATACACAACAATTTTCACTTTTCAC
*
17690514 TAAGTCATTGTATCTTGATATACATAAT
129 TAAGTCATTGCATC-TGATATACATAAT
* * * *
17690542 ACACTATCTAGTTAATAAAAAATTT-TCTACAAATTTTAGGCTTTGAATTACTATAAAAGTAGTT
1 ACACTATCTAGTTAATAAAGAATTTCT-TACAAAATTTAAGCTTTAAATTACTATAAAAGTAGTT
* *
17690606 CATCAACAAGTACAATACACAAT-A-AA-A-AAACATAAAATACACAACAATTTTCATCTTTT-A
65 CATCAACAAGCACAATACACAATAAGAACACAAAC-CAAAATACACAACAATTTTCA-CTTTTCA
17690666 -TAAAGTCATTGCATC-GA-AGTACACTCAAT
128 CT-AAGTCATTGCATCTGATA-TACA-T-AAT
* * * * * *
17690695 ATACTATCTATTTTAATATAGAATTTCTTACAAAATTTATGCTTTAAATTGCCATAAAAGTAGTT
1 ACACTATCTA-GTTAATAAAGAATTTCTTACAAAATTTAAGCTTTAAATTACTATAAAAGTAGTT
* * * * * * ** ** * *
17690760 TATCAACAAGCATAATGCATAACAAGAATTACAAAGAAAAATACGTAATAGTTTTCACTTTTCAC
65 CATCAACAAGCACAATACACAATAAGAA-CACAAACCAAAATACACAACAATTTTCACTTTTCAC
* * * *
17690825 AAAGTCATTGCTTCTCA-ATACAAACAAT
129 TAAGTCATTGCATCTGATATAC--ATAAT
*
17690853 ACAATATCTAGTTCAATAAAG
1 ACACTATCTAGTT-AATAAAG
17690874 TAAAGCACCT
Statistics
Matches: 270, Mismatches: 40, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
150 1 0.00
151 6 0.02
152 6 0.02
153 45 0.17
154 66 0.24
155 5 0.02
156 27 0.10
157 58 0.21
158 50 0.19
159 5 0.02
160 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (155 bp):
ACACTATCTAGTTAATAAAGAATTTCTTACAAAATTTAAGCTTTAAATTACTATAAAAGTAGTTC
ATCAACAAGCACAATACACAATAAGAACACAAACCAAAATACACAACAATTTTCACTTTTCACTA
AGTCATTGCATCTGATATACATAAT
Found at i:17693369 original size:159 final size:158
Alignment explanation
Indices: 17693081--17693384 Score: 464
Period size: 159 Copynumber: 1.9 Consensus size: 158
17693071 TACCTTTCAC
*
17693081 AATATATACAAAATACTATCTAGTTCAATATTGAATTTCTACAATGTATAGGCTTTCAATTACTA
1 AATATATACAAAACACTATCTAGTTCAATATTGAATTTCTACAATGTATAGGCTTTCAATTACTA
* * * ** *
17693146 CACTATTTTCTTCATCAACAATCACAATACACAACTAGAATCATTAAGCAAAATACGCAATAGTT
66 CACTATCTACTTCATCAACAATCACAATACACAACTAAAATCACAAAGCAAAATACACAATAGTT
17693211 TTCACCTTTCACAAAGTCATTGCATCTT
131 TTCACCTTTCACAAAGTCATTGCATCTT
* * *
17693239 AATATATACAAAACACTATCTTGTTCAATATTGAATTTTCTACAATGTTTAGGCTTTTAATTACT
1 AATATATACAAAACACTATCTAGTTCAATATTGAA-TTTCTACAATGTATAGGCTTTCAATTACT
* ** * *
17693304 ACGCTATCTACTTCATCAACAATCGTAATACACAATTAAAATTACAAAGCAAAATACACAATAGT
65 ACACTATCTACTTCATCAACAATCACAATACACAACTAAAATCACAAAGCAAAATACACAATAGT
17693369 TTTCACCTTTCACAAA
130 TTTCACCTTTCACAAA
17693385 TGTGATCTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
158 33 0.25
159 97 0.75
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (158 bp):
AATATATACAAAACACTATCTAGTTCAATATTGAATTTCTACAATGTATAGGCTTTCAATTACTA
CACTATCTACTTCATCAACAATCACAATACACAACTAAAATCACAAAGCAAAATACACAATAGTT
TTCACCTTTCACAAAGTCATTGCATCTT
Found at i:17694686 original size:38 final size:38
Alignment explanation
Indices: 17694605--17694713 Score: 94
Period size: 38 Copynumber: 2.8 Consensus size: 38
17694595 AGTACGAAAG
*** * * *
17694605 ATGACCTATATGGTGGATCATGTTGTATTGGTGTTGAAC
1 ATGA-CTATATGGTGGATCATGTTGTATCAATGCTAAAA
*
17694644 ATGACTATATTGTGGATCATGTTGTATCAATGCTAAAA
1 ATGACTATATGGTGGATCATGTTGTATCAATGCTAAAA
* * *
17694682 ATGACACATATGGTAGAGT-ATTTTGTATCAAT
1 ATGAC-TATATGGTGGA-TCATGTTGTATCAAT
17694714 ACTGCTGATT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
38 32 0.56
39 24 0.42
40 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (38 bp):
ATGACTATATGGTGGATCATGTTGTATCAATGCTAAAA
Found at i:17696897 original size:14 final size:15
Alignment explanation
Indices: 17696878--17696933 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
17696868 TATACCCACC
17696878 TTTTTCTT-TTTCTT
1 TTTTTCTTCTTTCTT
17696892 TTTTTCTTCTTTCTT
1 TTTTTCTTCTTTCTT
*
17696907 TTTTGTCCTCTTTCTT
1 TTTT-TCTTCTTTCTT
*
17696923 CTTTTTTTTCT
1 -TTTTTCTTCT
17696934 CAAACTCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 8 0.22
15 10 0.28
16 14 0.39
17 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTCTTCTTTCTT
Found at i:17703075 original size:16 final size:16
Alignment explanation
Indices: 17703031--17703085 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
17703021 CTCCATGTGG
* *
17703031 ATTAATGATATTATTTA
1 ATTAATCATA-TAATTA
17703048 ATTTAATCATATAATTA
1 A-TTAATCATATAATTA
* *
17703065 ATTAATTATATTATTA
1 ATTAATCATATAATTA
17703081 ATTAA
1 ATTAA
17703086 ATGTATCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 18 0.55
17 7 0.21
18 8 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAATCATATAATTA
Found at i:17703180 original size:77 final size:77
Alignment explanation
Indices: 17703090--17703245 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
17703080 AATTAAATGT
* *
17703090 ATCACTTGTCAATTGAAGATAGAACACTTGGTTTGACAAATCAGATTTCACCAATGAGTCATTAA
1 ATCACTTGTCAATTAAAGATAGAACACTTGGTTTGACAAATCAGATTTCACCAATGAGTCATCAA
*
17703155 TTATTATCTCTA
66 TTACTATCTCTA
17703167 ATCACTTGTCAATTAAAGATAGAACACTTGGTTTGACAAATCAGATTTCACCAATGAGTCATCAA
1 ATCACTTGTCAATTAAAGATAGAACACTTGGTTTGACAAATCAGATTTCACCAATGAGTCATCAA
17703232 TTACTATCTCTA
66 TTACTATCTCTA
17703244 AT
1 AT
17703246 TAAACTTCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (77 bp):
ATCACTTGTCAATTAAAGATAGAACACTTGGTTTGACAAATCAGATTTCACCAATGAGTCATCAA
TTACTATCTCTA
Found at i:17703512 original size:23 final size:23
Alignment explanation
Indices: 17703486--17703532 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
17703476 ATTGTCAAGA
17703486 TATTGTTCTTCAATCTTATTCCC
1 TATTGTTCTTCAATCTTATTCCC
*
17703509 TATTGTTCTTCGATCTTATTCCC
1 TATTGTTCTTCAATCTTATTCCC
17703532 T
1 T
17703533 CTAAAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.53
Consensus pattern (23 bp):
TATTGTTCTTCAATCTTATTCCC
Found at i:17705844 original size:19 final size:19
Alignment explanation
Indices: 17705820--17705975 Score: 106
Period size: 19 Copynumber: 8.2 Consensus size: 19
17705810 ATGGTTTAGG
17705820 GTTTAGGGTTTCACCTAGA
1 GTTTAGGGTTTCACCTAGA
**
17705839 GTTTAGAATTTCACCTA-A
1 GTTTAGGGTTTCACCTAGA
* *
17705857 GATTTAGGGTTTCACTTAGG
1 G-TTTAGGGTTTCACCTAGA
* * *
17705877 GTTTATGGTTTTATCTAAGA
1 GTTTAGGGTTTCACCT-AGA
*
17705897 G-TTAGGGTTTCACTTATGA
1 GTTTAGGGTTTCACCTA-GA
*
17705916 -TATT-GGGTTTCACCTAAAA
1 GT-TTAGGGTTTCACCT-AGA
* * *
17705935 G-TTAAGGATTCACCTAGG
1 GTTTAGGGTTTCACCTAGA
**
17705953 GTTTTCGGTTTCACCTAGA
1 GTTTAGGGTTTCACCTAGA
17705972 GTTT
1 GTTT
17705976 CAATTTTTGC
Statistics
Matches: 102, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
18 7 0.07
19 88 0.86
20 7 0.07
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (19 bp):
GTTTAGGGTTTCACCTAGA
Found at i:17705908 original size:57 final size:57
Alignment explanation
Indices: 17705815--17705928 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 57
17705805 TTGTGATGGT
17705815 TTAGGGTTTAGGGTTTCACCTAGAGTTTAGAATTTCACCTAAGAT-TTAGGGTTTCAC
1 TTAGGGTTTAGGGTTTCACCTAGAGTTTAGAATTTCACCTAAGATATT-GGGTTTCAC
* * * ** * *
17705872 TTAGGGTTTATGGTTTTATCTAAGAG-TTAGGGTTTCACTTATGATATTGGGTTTCAC
1 TTAGGGTTTAGGGTTTCACCT-AGAGTTTAGAATTTCACCTAAGATATTGGGTTTCAC
17705929 CTAAAAGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 42 0.88
58 6 0.12
ACGTcount: A:0.23, C:0.11, G:0.24, T:0.42
Consensus pattern (57 bp):
TTAGGGTTTAGGGTTTCACCTAGAGTTTAGAATTTCACCTAAGATATTGGGTTTCAC
Found at i:17706377 original size:16 final size:15
Alignment explanation
Indices: 17706356--17706423 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 15
17706346 TTTTAAAATT
17706356 TTATTTTGTTATATTA
1 TTATTTTGTTAT-TTA
*
17706372 TTATTTTTTTATTTTA
1 TTATTTTGTTA-TTTA
*
17706388 CTTA-TTTGTTACTTA
1 -TTATTTTGTTATTTA
*
17706403 TGATTATTGTTATTTA
1 TTATT-TTGTTATTTA
17706419 TTATT
1 TTATT
17706424 GTTTATTGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 2 0.05
15 4 0.10
16 32 0.76
17 4 0.10
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATTTTGTTATTTA
Found at i:17706449 original size:20 final size:20
Alignment explanation
Indices: 17706405--17706450 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
17706395 GTTACTTATG
* *
17706405 ATTATTGTTATTTATTATTG
1 ATTATTGTTATATATTATTA
* *
17706425 TTTATTGTTATATATTTTTA
1 ATTATTGTTATATATTATTA
17706445 ATTATT
1 ATTATT
17706451 AAGCTTACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
ATTATTGTTATATATTATTA
Found at i:17707085 original size:24 final size:23
Alignment explanation
Indices: 17707058--17707102 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17707048 CCTTTTTTGG
17707058 TTTTCATTCTAGTTTTTACTTCAT
1 TTTTCATTCTAGTTTTT-CTTCAT
**
17707082 TTTTTTTTCTAGTTTTTCTTC
1 TTTTCATTCTAGTTTTTCTTC
17707103 TTGTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.11, C:0.16, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTTCATTCTAGTTTTTCTTCAT
Found at i:17707097 original size:12 final size:12
Alignment explanation
Indices: 17707058--17707109 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
17707048 CCTTTTTTGG
17707058 TTTTCATTCTAGT
1 TTTTC-TTCTAGT
*
17707071 TTTTACTTC-ATT
1 TTTT-CTTCTAGT
*
17707083 TTTTTTTCTAGT
1 TTTTCTTCTAGT
*
17707095 TTTTCTTCTTGT
1 TTTTCTTCTAGT
17707107 TTT
1 TTT
17707110 GGTTTCTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.09
12 21 0.66
13 7 0.22
14 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTCTTCTAGT
Found at i:17710993 original size:2 final size:2
Alignment explanation
Indices: 17710988--17711013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17710978 TCCTTAAAAA
17710988 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17711014 TAAAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17713313 original size:17 final size:17
Alignment explanation
Indices: 17713287--17713330 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
17713277 TATTTCATTA
* *
17713287 TATATATTTTTATCTTT
1 TATATTTTTTTATATTT
17713304 TATATTTTTTTATATTT
1 TATATTTTTTTATATTT
*
17713321 TTTATTTTTT
1 TATATTTTTT
17713331 CGTTGAGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TATATTTTTTTATATTT
Done.